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Gene information
General information
TC005167 Gene

The sequence from the iB fragment is matched against the genes from the official gene set. The matche(s) is/are visualizied in a genome browser.

NC_007416.3: 4610453..4618961
Sequence information
Transcripts / Proteins (1) Get mRNA sequence
Get CDS sequence
Get protein sequence
Ortholog information (from OrthoDB)

The information about the homolog genes in Drosophila is provided by OrthoDB http://www.orthodb.org/. The homologs are sorted according to their similarity score. For an orthology statement additional analysis are required.
The data basis for the orthologs is OrthoDB v9 containing OGS3 for Tribolium castaneum and 2015_04 (r6.07) for Drosophila melanogaster.

Closest fly homologs
    		TC005167
    Gene ontology

    GO terms for Tribolium

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    There are no GO terms for Tribolium at the moment. You can help the community by providing some GO terms for this gene.


    GO terms for the homologous Drosophila genes

    Assign a GO term to this Tribolium gene by filling in the fields. Repeat to add several GO terms. Search AmiGO for the correct GO ID. Use only the most specific term - use "graph views" to browse related terms ("child terms" are more specific; the more general "parent" terms will be automatically linked). Only information based on Tribolium data should be entered - do not define terms just based on Drosophila knowledge. We will review this information and submit the annotation to the Gene Ontology consortium.


    Gene
    {{ goGene }}
    The Tribolium gene the GO term is assigned to.
    GO ID *
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    The ID of the GO term you assign to the gene. Please enter only the ID of the GO term with proceeding 'GO:'. This information is mandatory.
    Evidence
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    The evidence code describes with which method the function or location, expressed by the GO term, was show for this gene. Please refer to this page for a definition of the evidence code and a decision tree.
    Reference *
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    The reference where the function or location is described for the gene. Please enter a PubMed ID. This information is mandatory.
    Quotation
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
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    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03913

    Attention! iBeetle is a first pass screen. Hence, the documented phenotypes need to be confirmed by independent experiments using non-overlapping dsRNA fragments! Phenotypes with a penetrance > 50% are frequently reproduced. See Schmitt-Engel et al. 2015 for details on reproducibility.

    iB sequence
    Phenotype after pupal injection
    Usually 10 injected animals

    Pupal injection procedure

    Day 0: 10 female pupae of the pBA19 strain (muscle enhancer trap line) were injected with dsRNA.

    3 days post injection (dpi): Hatch control: Pupal and adult lethality as well as metamorphosis defects (molting, eclosion) were documented. For mating, 4 males of the black strain were added.

    9 dpi: First egg-lay was collected and incubated for cuticle analysis. Adult lethality and egg production (reduced/ no egg-lay) was documented.

    11 dpi: Second egg-lay was collected and incubated for embryonic muscle analysis. Adult lethality and egg production (reduced/ no egg-lay) were documented.

    Note: The adult morphology was not analyzed systematically at 3/9/11 dpi. Only obvious phenotypes, visible without magnification, have been annotated.

    13 dpi: Egg productivity and Ovary analysis
    The percentage of hatched larvae was documented and not hatched larvae/ eggs were embedded for cuticle analysis (15 dpi). In case of a reduction of egg production, 4 injected females were dissected to analyze the gross morphology of the ovaries.

    14 dpi: Analysis of embryonic musculature and early embryonic development
    Offspring of the injected females (hatched and not hatched larvae/ eggs) were analysed for embryonic lethality and muscle defects.

    15 dpi: Analysis of larval instar 1 cuticle
    Offspring of injected females were analysed and cuticle phenotypes were annotated.

    22 dpi: Stink gland analysis
    Documentation of defects in abdominal and thoracic stink glands (colour, size, content) of the injected femals.

    Terms used in the pupal injection procedure

    larval pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    empty eggs
    Just empty shells are visible, no cuticle has been developed.
    strong defects
    L1 cuticle larvae which show severe defects. These strong defects are subdivided into three categories
    strongly fragmented (cuticle crumbs)
    No segments or appendages are identifiable, only residues of cuticle and bristles can be identified.
    cuticle remnants (with unidentifiable segments)
    Segments or parts of appendages are recognizable, but identity is not clear.
    cuticle remnants (with some identifiable segments)
    At least one segment or appendage is clearly regonizable.
    number of eggs on slide
    affected embryos usually (not always) do not hatch. Only the not hatched were used for cuticle analysis.
    For the embryonic muscle analysis the hatched as well as the not hatched were analysed.
    total number of affected eggs/embryos/larvae
    Summary of all different phenotypes/ phenotypic series which were annotated.
    inside-out
    The L1 larva shows a partial or complete inversion., e.g. bristles, appendages or parts of the abdominal segments are inverted into the interior of the cuticle.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    Please see the help page for more information
    Metamorphosis and survival

    Lethality 11 days after pupal injection: 0.0% (includes death as pupa, adult)

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 abdomen musculature specific subset lateral not present - Penetrance (percentage of animals/eggs on slide): more than 80%

    Comment: wt larvae have two oblique lateral muscles. in larvae showing the phenotype one or both oblique muslces were missing. if remaining, these muscles showed a wrong orientation and were thinner than in wt larvae. leg musculature seems to be unaffected.
    abdomen musculature specific subset lateral orientation irregular - Penetrance (percentage of animals/eggs on slide): more than 80%
    larval musculature thinner - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    thorax musculature specific subset partially not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: the oblique thoracic musculature was nt present. remaining longitudinal thoracic musculature was thinner than normal. penetrance of this phenotype is not sure (not able to see thoracic muscles when larvae is lying on the dorsal side).  
    thorax musculature thinner - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen musculature specific subset lateral thinner - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: larvae showing decreased muscle fluorescence have also thinner muscles, and the oblique lateral muscles are also missing.  
    larval musculature rounded - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature partially randomnot present - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    procephalic appendages random remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    gnathal appendages random remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    gut remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen partially remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    antenna not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    Phenotype after larval injection
    Usually 10 injected animals

    Larval injection procedure

    Day 0: 10 female L5-6 larvae of the D17Xhom strain (females express RFP in the eyes and in the CNS; pupae express GFP in the thorax) were injected with dsRNA.

    11 days post injection (dpi): Pupal morphology Documentation of larval/ pupal death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of pupal head and appendages, pupal thorax, pupal thoracic musculature, pupal legs, pupal wings, pupal abdomen and pupal genital lobes.

    16 dpi: Adult morphology Documentation of larval/ pupal and adult death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of adult head and appendages, adult thorax, adult elytra and hindwings, adult legs and cuticle properties. For mating 4 males of the black strain were added.

    19 dpi: Sieving and egg-lay Documentation of adult lethality and enduring metamorphosis defects.

    22 dpi: Ovary analysis (Fertility) In case of a reduction of egg production 4 females were dissected and the gross morphology of the ovaries were analysed.

    41 dpi: Fertility and stink gland analysis Documentation of defects in abdominal and thoracic stink glands development (colour, size, content) of the injected females. Check for fertility of injected larvae (no or decreased offspring).

    Terms used in the larval injection procedure

    pupal/ adult pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    pupal molt not fulfilled
    The hatching from the larva to the pupa is interrupted. Either it dies as prepupa or the phenotype shows larval as well as pupal features.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    Metamorphosis and survival

    Lethalities 11 days after larval injection: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection

    Adult morphology
    abdominal odoriferous glands completestructure necrotic - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection


    Fertility
    egg production: number <50% of expected -

    Comment: No phenotype found!
    ovary without detectable defects - Number of animals showing the phenotype: 3
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005167 RA
      MAGIEVDIN SLLAQKDAI IREQRDQII RLKRELDGV 
ASERDLLLC ENSNLRFEL EMVELKRLQ DESFPPKME 
RSQIVNSMG SSDQFQEQT YIQAPSFVQ AQNYSTPTP 
SPIYSRASP NNSTYVNVS QPLHKKGSL RNGDVLKRS 
RVQTTYELS QDILDKQIE VLERKYGGV KARNAALTI 
QRAFRRYTL LKKFAAITA MAKAEKRIS RRIPANSED 
CRSTIGETE QCPEYMRNY EGHDCSNMR VLPVRSMSL 
RERRNIDNM PIPRSQSGT PTVCWENYS SSSLQHYYS 
PADSKSDSL GTQVTASPS SCSTPTTST NGYARSRHS 
LNSRKVPPE VPKRTSSIT SRSVGDPRH HKSNGLTKT 
NENGSLSSV QSSGSDSSI STERVQCEF SGSPVWKRK 
GNHISEYAE PALETSLGN ISNTSTSTY TLERANEQQ 
APASYKITE TIRKRQYRV GLNLFNKKP ERGISYLIR 
RGFLENSPQ GVARFLISR KGLSKQMIG EYLGNLQNP 
FCMAVLECF ANELDLSGM QVDVALRKF QQHFRMPGE 
AQKIERLME VFSHRYCQC NVDIVARLR SPDTIFVLA 
FAIIMLNTD LHTPNIKPE RRMKLEDFI KNLRGIDDC 
GDIDSDMLT GVYERVKAN EFKPGSDHV TQVMKVQAT 
IVGKKPNMA LPHRRLVCY CRLYEIPDI YKKERPGVH 
QREVFLFND LLVITKILS KKKSSVTYT FRNSFPLCG 
MTVTLFEAA HYPYGIRLS QRVDGKVLV TFNARNEHD 
RCKFAEDLK EAVSEMDEM ENLRIEAEL ERQKSNRGT 
RTGTENRDS GVADVEVCS YQCPCSQNQ ALGGSECAE 
EVGHDTQIK RSALSNSLL DIHEQFAGE KAQRRGSVG 
SLDSGMSVS FQSTSASTC SRSDKLANK GKPGLHNHQ 
SFLGGLFNK KQQNNVAVK STEV
    CDS sequence
    • >TC005167 RA
      atggcagga atagaagtc gatataaat tcgttattg 
gcccaaaaa gatgccatc atacgggaa caacgggac 
cagataatt cggctaaag agggaactg gatggagtt 
gcaagcgag cgggatctt ttgctgtgt gaaaacagc 
aatctgagg ttcgagctg gaaatggtg gaactgaaa 
cggttgcaa gatgaaagc tttccaccg aaaatggaa 
aggtcccag atagtgaat tcgatgggt tcatccgac 
cagtttcaa gaacagact tacatccag gctcccagt 
tttgtccaa gctcaaaac tacagtact ccaaccccc 
agtcctatc tattcccgt gcctcccct aacaactcg 
acgtacgtg aatgtatcg cagcctctt cataagaag 
ggttcttta cggaacgga gatgtcttg aaaaggtcg 
agggttcag acaacatac gagctgtcg caagacatt 
ctcgacaaa caaatcgaa gtgttggaa cggaaatat 
ggcggtgtt aaagcgcga aatgcagct ctcacgatt 
caacgggcg ttcagacga tacacacta cttaaaaaa 
ttcgcagca attacagca atggccaaa gccgagaaa 
cgtattagt cgccgaatt cctgcaaat tccgaagac 
tgtcgtagc acaataggt gagactgag cagtgtccc 
gaatatatg aggaattat gaaggacac gactgctcg 
aatatgaga gttcttcca gttagatcg atgtctttg 
cgcgagaga cgtaatatt gacaatatg ccaatacct 
aggagtcag tcggggact cctacagtg tgttgggag 
aattattcc tcatcctcc ctccaacac tactattca 
cccgctgac tccaaatcg gattcgcta ggtacccaa 
gtgactgca agtcccagt tcttgtagt acccctaca 
acttccaca aacggctac gctcgcagc cgccacagt 
ctgaacagt agaaaagta ccaccagaa gtacctaaa 
cgaacctca agtattacc tctcgttcg gtcggagac 
ccccgacac cacaaaagc aacggcttg accaaaaca 
aacgaaaac ggctcgttg tcaagtgtc caaagttcc 
ggtagtgac agtagtata tcgactgaa cgcgtgcaa 
tgtgaattt tccggatcg ccagtctgg aagcgcaaa 
ggaaatcac atttcggaa tacgccgaa ccggcctta 
gagaccagt ttagggaac atttccaac actagcaca 
tccacctac acactagaa cgagccaat gaacaacaa 
gcacccgcc agctataaa ataaccgag actataaga 
aaacgacaa tacagagta ggacttaac ttatttaat 
aaaaaacca gaacgaggc atctcctat ctaatccga 
agagggttc ttggagaac tcgccgcaa ggcgtcgcc 
agatttctc atctcgaga aaaggactg agtaaacaa 
atgatcgga gagtattta gggaattta caaaatccg 
ttttgtatg gctgttttg gaatgcttc gctaatgag 
ttagatttg tcgggaatg caagtcgat gttgccctt 
cggaagttc cagcagcat ttccgaatg cctggagaa 
gcacaaaag attgaaaga cttatggag gtgttctcg 
catagatat tgccagtgc aatgtcgat atcgtcgcc 
cggttaaga tcgcctgat acgattttt gtgctcgcc 
tttgcgata ataatgctg aacactgac ctccacacc 
ccgaatata aaacccgaa cgtcggatg aagctcgaa 
gacttcata aaaaattta cgaggtatc gacgattgt 
ggtgatatt gacagtgat atgttgact ggggtttac 
gagcgtgtc aaagcgaac gaatttaag cccggttca 
gaccacgtg actcaagta atgaaagtc caagcaacg 
atcgttggt aaaaaacca aatatggcg ttaccacat 
cgccgacta gtgtgttat tgtcgttta tacgaaatc 
cctgatatt tataagaaa gaaagacct ggtgtacac 
cagagagaa gtgttcctt tttaacgat ttgctcgtt 
attacgaaa attctaagt aagaagaag tcttcagtt 
acgtataca ttcaggaat agtttccct ctgtgcggg 
atgactgtc actctcttc gaagctgcc cattaccct 
tatggtata cgtttgagc caacgtgtc gatggcaaa 
gtattggtc acatttaac gcgcgaaat gagcatgat 
aggtgcaaa ttcgcggag gatttgaag gaggctgta 
agcgagatg gatgaaatg gagaatttg aggattgag 
gctgagcta gagcggcag aagtcgaac cgggggacc 
aggacaggt accgaaaac cgggacagt ggcgtcgct 
gacgtggaa gtgtgttct taccagtgc ccctgctcc 
cagaaccag gcactagga gggtcggag tgtgccgaa 
gaagtcggt catgacact caaatcaaa cgttcggcg 
ctcagtaac tcgttgctg gatatccac gaacagttt 
gcaggagaa aaggcacag cgccgaggt agtgtgggc 
tcgttagat agcggcatg tctgtatca ttccagtcg 
acgtcggct agtacttgc tcccggtct gacaagctg 
gctaataaa ggtaagcca ggcctccat aaccaccag 
tcattctta ggcggcctg ttcaacaag aaacaacag 
aacaatgtg gcggtgaag tcgaccgaa gtgtaa
    mRNA sequence
    • >TC005167 RA
      taagacaag tcgctaagt taccatcct ggaagtgtt 
actggaggg gatttccag atggggcaa cgtgtgtag 
gtttgttca tcccgtttt gttctgtgc tctcgctcc 
tgacgtaag agagacaga tgaataata gtgagaaaa 
accaaggaa cagtgcggc gcgttgtat ttcgtctgt 
caatatcgt ttcagaata agatgtgat aattttttt 
gaaaaactt gtgtgaaaa aaggaaaaa ccaaatcgt 
tgctggagg aaaatgccc gtcagatta aaaatttgg 
acggtaccg taacaactg aggatcgtg tgtgtgtga 
acagtagga gacctgcaa tggcaggaa tagaagtcg 
atataaatt cgttattgg cccaaaaag atgccatca 
tacgggaac aacgggacc agataattc ggctaaaga 
gggaactgg atggagttg caagcgagc gggatcttt 
tgctgtgtg aaaacagca atctgaggt tcgagctgg 
aaatggtgg aactgaaac ggttgcaag atgaaagct 
ttccaccga aaatggaaa ggtcccaga tagtgaatt 
cgatgggtt catccgacc agtttcaag aacagactt 
acatccagg ctcccagtt ttgtccaag ctcaaaact 
acagtactc caaccccca gtcctatct attcccgtg 
cctccccta acaactcga cgtacgtga atgtatcgc 
agcctcttc ataagaagg gttctttac ggaacggag 
atgtcttga aaaggtcga gggttcaga caacatacg 
agctgtcgc aagacattc tcgacaaac aaatcgaag 
tgttggaac ggaaatatg gcggtgtta aagcgcgaa 
atgcagctc tcacgattc aacgggcgt tcagacgat 
acacactac ttaaaaaat tcgcagcaa ttacagcaa 
tggccaaag ccgagaaac gtattagtc gccgaattc 
ctgcaaatt ccgaagact gtcgtagca caataggtg 
agactgagc agtgtcccg aatatatga ggaattatg 
aaggacacg actgctcga atatgagag ttcttccag 
ttagatcga tgtctttgc gcgagagac gtaatattg 
acaatatgc caataccta ggagtcagt cggggactc 
ctacagtgt gttgggaga attattcct catcctccc 
tccaacact actattcac ccgctgact ccaaatcgg 
attcgctag gtacccaag tgactgcaa gtcccagtt 
cttgtagta cccctacaa cttccacaa acggctacg 
ctcgcagcc gccacagtc tgaacagta gaaaagtac 
caccagaag tacctaaac gaacctcaa gtattacct 
ctcgttcgg tcggagacc cccgacacc acaaaagca 
acggcttga ccaaaacaa acgaaaacg gctcgttgt 
caagtgtcc aaagttccg gtagtgaca gtagtatat 
cgactgaac gcgtgcaat gtgaatttt ccggatcgc 
cagtctgga agcgcaaag gaaatcaca tttcggaat 
acgccgaac cggccttag agaccagtt tagggaaca 
tttccaaca ctagcacat ccacctaca cactagaac 
gagccaatg aacaacaag cacccgcca gctataaaa 
taaccgaga ctataagaa aacgacaat acagagtag 
gacttaact tatttaata aaaaaccag aacgaggca 
tctcctatc taatccgaa gagggttct tggagaact 
cgccgcaag gcgtcgcca gatttctca tctcgagaa 
aaggactga gtaaacaaa tgatcggag agtatttag 
ggaatttac aaaatccgt tttgtatgg ctgttttgg 
aatgcttcg ctaatgagt tagatttgt cgggaatgc 
aagtcgatg ttgcccttc ggaagttcc agcagcatt 
tccgaatgc ctggagaag cacaaaaga ttgaaagac 
ttatggagg tgttctcgc atagatatt gccagtgca 
atgtcgata tcgtcgccc ggttaagat cgcctgata 
cgatttttg tgctcgcct ttgcgataa taatgctga 
acactgacc tccacaccc cgaatataa aacccgaac 
gtcggatga agctcgaag acttcataa aaaatttac 
gaggtatcg acgattgtg gtgatattg acagtgata 
tgttgactg gggtttacg agcgtgtca aagcgaacg 
aatttaagc ccggttcag accacgtga ctcaagtaa 
tgaaagtcc aagcaacga tcgttggta aaaaaccaa 
atatggcgt taccacatc gccgactag tgtgttatt 
gtcgtttat acgaaatcc ctgatattt ataagaaag 
aaagacctg gtgtacacc agagagaag tgttccttt 
ttaacgatt tgctcgtta ttacgaaaa ttctaagta 
agaagaagt cttcagtta cgtatacat tcaggaata 
gtttccctc tgtgcggga tgactgtca ctctcttcg 
aagctgccc attaccctt atggtatac gtttgagcc 
aacgtgtcg atggcaaag tattggtca catttaacg 
cgcgaaatg agcatgata ggtgcaaat tcgcggagg 
atttgaagg aggctgtaa gcgagatgg atgaaatgg 
agaatttga ggattgagg ctgagctag agcggcaga 
agtcgaacc gggggacca ggacaggta ccgaaaacc 
gggacagtg gcgtcgctg acgtggaag tgtgttctt 
accagtgcc cctgctccc agaaccagg cactaggag 
ggtcggagt gtgccgaag aagtcggtc atgacactc 
aaatcaaac gttcggcgc tcagtaact cgttgctgg 
atatccacg aacagtttg caggagaaa aggcacagc 
gccgaggta gtgtgggct cgttagata gcggcatgt 
ctgtatcat tccagtcga cgtcggcta gtacttgct 
cccggtctg acaagctgg ctaataaag gtaagccag 
gcctccata accaccagt cattcttag gcggcctgt 
tcaacaaga aacaacaga acaatgtgg cggtgaagt 
cgaccgaag tgtaaatca atccaaata tataagtgt 
aatcggttc tttttcaaa tttaacttg tgcatgtat 
gaataacca aatacattt tcaccattt ataagtgtt 
accaaatat attaattat ggctgtcta atttcgccc 
cagcgcgta atacttaat tttttgtta ttattattt 
tttaatttc cttcttgtt actaggaga ggcaaactt 
aatgtattt tctttacca ttatattat attcactcg 
ctattttga cagctattc aacattaag gttgcctta 
aaccggctc tctgtcttc aatggcatt gaacatatt 
gataattgt cttctaatg ttgcctgta aaggatttg 
taaatagtt aaattatta aagagagca acatgttct 
agtcgattg taaatatgt tagcaatct ctactaatg 
atattaaat aatttaaat gtatgtaat aagtgtttt 
tttaataac caataaata gtcggacct tta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY
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