Status
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Gene information
General information
TC008959 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_007422.5: 12709493..12716100
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
    		TC008959
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04568

    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 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    Fertility
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008959 RA
      MMETQQWPA KFQQSGAGT DTTQDSLNN GEDGNVAKE 
ENGDGVHES DKRAENDSP TISEKARQL ISLILEQMK 
ELSNAEKYL LYLKLFQIS NVVDPLRQP LNPLGSRSE 
INRTISWIK THLEEDAAL SLPKQEVYE EYTVYCTQN 
QIKSLSQAD FGKVMKQVY PKVRARRLG TRGNSRYCY 
SGLRRCIKL KPPKLPDLG DKPLSTEAP CTQSTLTAA 
AWLIVKEWS EFHFGVQFP SLQALARFL VVSHSVGAG 
TDAANQLTS ATESQLKGE VCGGKTGTK HREMQLQLQ 
KKIQQKNEV KERKRKIQS PKSDPKPTV KKSKGSVSS 
IRLEGSPTL TGAGESSTS TSTGSTSTS PTQGKSICD 
KSLDFTQLP ALPDFKSFQ KPVCEQQQP QQQQQNGVG 
TSTKVAIPR LASGKAQQQ QRSPQSSPK KQVKNAKYK 
AIQPKPQPC DNASYNPQT TADIRSQGV LHNVDRCKE 
RKSSDDDCD APVFPLPRE RLESISNVD KDAMDEYLG 
TNNSQHEEE LSKYFSNNI ETTDQDNST KLSQLRQLL 
EQNGISDNK NFLIDSGPT VALPHPMLD PLAVPNVNI 
YPIPAQLST LPTNQSSAR RRVSFETPL HEDTVPPSP 
NTRRKNFSF TPISPGPQS PTGRQSKCS STNVSPFVS 
PRNTPIPRT KNTTHQNAG IGVRKKIKR ESDLSVEIP 
DAKNYMAMS APVSPMLYN NKKSVLEKL LHSNSKVAY 
TPDYVNPSV KHDVSEVDL LESENVETF PDFTAYRSQ 
SVPLNQMIK SNFTEDAHF LPTLPNQGA DFNDFDPIS 
ESVTVNRII DALDEHPCE NPGTMEMYN VEMPQNSQC 
LPSFNLIVD NNIDNFGEN MAFAPGSRH LARSQSIDV 
NCFDMKSAN LNPSRSVPS TPLPFNSSK PAPVKNFAN 
QSSRSYPST PSLVAESAF NYAVNGDCL LNGQPIRNG 
TARNQADEL TYFMNLNET NEDNNIDRH LTAEEEFSI 
GRSLPGNEF GIAESENAL MDEDGVLIG EQTFNGNIN 
N
    CDS sequence
    • >TC008959 RA
      atgatggaa actcaacaa tggcccgca aaattccaa 
caatctggg gccgggacc gacaccaca caagatagt 
ttaaacaat ggagaggac ggcaacgtc gcgaaagaa 
gaaaacggc gatggggtg cacgagagc gacaagcgg 
gccgaaaac gacagcccc acaatcagt gagaaagcc 
agacagtta atatcgttg atcttagag cagatgaaa 
gaattgtca aacgccgaa aaatatctc ttgtatttg 
aaactgttt caaatcagc aatgtagtg gaccctttg 
cggcaaccc ttgaaccca ctgggcagt cgttccgaa 
atcaacagg accatatca tggattaag actcactta 
gaagaagac gcagcgctt tctctcccc aagcaggag 
gtctacgag gaatataca gtatattgc acacaaaat 
caaatcaag tctctttcc caagctgat tttggcaag 
gtcatgaag caagtgtat ccaaaagtg agggctagg 
cgcttgggt acccgcgga aattccaga tattgctat 
tcaggcttg agaagatgt atcaagtta aagcctcca 
aaattgcca gatcttggc gataagcct ttaagcacg 
gaagcccct tgtactcag tcgacttta acagcggcg 
gcttggtta attgtgaaa gaatggtct gaatttcat 
tttggagtt cagtttcca tcattgcaa gccttggcc 
cggtttctt gttgtttct cattcagtt ggtgcagga 
actgacgct gccaaccag ttgacttca gctacagaa 
tcacagttg aaaggggag gtgtgtggt gggaaaact 
ggaaccaaa cacagagaa atgcagctg cagttgcag 
aagaagatc caacagaag aacgaagtc aaagaaaga 
aaaagaaaa atacagtct cccaaatcc gatccgaag 
cccactgtg aagaaatca aagggatca gtgtcgtcg 
atccgactc gaaggttcc cccacattg acgggtgcg 
ggtgaaagc agcaccagt acaagcacc ggcagcacc 
agcacgagt cccactcag ggcaaatct atctgtgat 
aaatcgtta gatttcact caactacca gcgttacct 
gactttaaa agtttccaa aagcccgtc tgtgaacaa 
caacaacca caacagcaa caacaaaac ggtgtcggg 
acctcgacg aaagtagcg ataccgcgt ctagcctcc 
ggtaaagct caacaacag caacgatcg ccccaatcg 
tcccccaag aagcaagtc aagaatgca aagtacaaa 
gccatccaa cccaaaccg caaccatgt gataacgca 
tcgtacaac ccgcagacc actgcggat atcagatct 
caaggtgta ctacacaac gtagatagg tgtaaggaa 
agaaaatca agtgatgat gattgtgat gctcccgtt 
tttccgctg ccgagggag aggctcgaa agcatcagc 
aatgtcgac aaggacgcc atggacgaa tatctaggt 
acaaacaac agccagcac gaagaagag ctgtcgaaa 
tacttcagc aacaacatc gagacaacg gaccaagac 
aactccacc aaactctcc caactccgt caactcctc 
gaacagaac ggcatatcc gacaacaaa aatttcctc 
atcgatagc ggccccacc gtcgccttg ccccacccc 
atgctcgac cctctggcc gtccccaac gtcaacatc 
tatccaatc ccggcccag ctctccaca ttaccgacc 
aaccagagc agcgctcgc cgtcgcgtc agcttcgaa 
acgcccctc cacgaggac accgtccct cccagccca 
aatactcgc cgcaaaaac ttcagcttc acccccata 
tcaccgggc ccccaatcg cccaccggg cgccaatcc 
aagtgttcc agcacgaac gtaagtcct tttgtgagt 
ccccggaac acaccaata ccccgtact aaaaacacg 
acccaccaa aacgccgga atcggcgtc cggaaaaaa 
atcaaacgc gaatccgat ctgagcgtc gaaatcccg 
gacgcgaaa aactacatg gccatgtcg gcccccgtc 
agccccatg ctatacaac aacaaaaaa tcggtcctc 
gaaaaactg ctacattcg aacagcaaa gtcgcctac 
accccggat tatgtcaat ccttccgta aaacacgac 
gtgagcgaa gtcgattta ctcgaaagc gaaaacgtg 
gagactttc ccggacttc acagcctat aggtcgcag 
tcggtccct ttgaaccag atgatcaag tcgaatttc 
accgaagac gcccacttc ctgccgact ctgcccaat 
cagggcgcc gatttcaac gacttcgac ccgatttcc 
gaatcggtg accgttaac cggatcatt gacgccctc 
gacgagcat ccgtgcgag aatccgggc actatggag 
atgtacaac gtggaaatg cctcaaaac agccaatgc 
ctgcccagc tttaacctc attgtcgac aacaacatc 
gacaacttc ggcgagaat atggccttt gcgcccgga 
tcgcgtcac ctggccagg tcgcaaagc atcgatgtc 
aattgtttc gatatgaaa tcggccaat ctcaaccct 
tccagatct gtcccaagc acgcccctc ccatttaac 
agtagcaag cccgccccc gtgaaaaac ttcgccaat 
cagagctcg cgctcgtac ccgtcgacg ccgtcgttg 
gtggccgag tcggcgttt aactacgcc gttaacgga 
gactgtctg ttgaacgga cagccgata cggaacgga 
acggcgcgg aatcaggcg gatgagttg acgtatttt 
atgaatttg aacgaaacg aacgaggac aataatatc 
gataggcat ttaacggca gaggaggag tttagtata 
gggaggagt ttgccaggt aatgagttc ggtattgcc 
gaaagtgag aatgctttg atggacgag gacggtgtc 
ttgattggt gagcagact tttaacggg aatattaat 
aattga
    mRNA sequence
    • >TC008959 RA
      atggataaa aaacgttta gaagaacga aaggattgt 
cgtccattg gagaccagc tgatttgag ttgacaata 
aaatgttcc ggtcttgtc agcccgtat tggctggta 
aagtgtcga aaaattgtg cggttcgtg ctgaaacca 
actgaaata ggccaaaaa attgctggc gatgatgga 
aactcaaca atggcccgc aaaattcca acaatctgg 
ggccgggac cgacaccac acaagatag tttaaacaa 
tggagagga cggcaacgt cgcgaaaga agaaaacgg 
cgatggggt gcacgagag cgacaagcg ggccgaaaa 
cgacagccc cacaatcag tgagaaagc cagacagtt 
aatatcgtt gatcttaga gcagatgaa agaattgtc 
aaacgccga aaaatatct cttgtattt gaaactgtt 
tcaaatcag caatgtagt ggacccttt gcggcaacc 
cttgaaccc actgggcag tcgttccga aatcaacag 
gaccatatc atggattaa gactcactt agaagaaga 
cgcagcgct ttctctccc caagcagga ggtctacga 
ggaatatac agtatattg cacacaaaa tcaaatcaa 
gtctctttc ccaagctga ttttggcaa ggtcatgaa 
gcaagtgta tccaaaagt gagggctag gcgcttggg 
tacccgcgg aaattccag atattgcta ttcaggctt 
gagaagatg tatcaagtt aaagcctcc aaaattgcc 
agatcttgg cgataagcc tttaagcac ggaagcccc 
ttgtactca gtcgacttt aacagcggc ggcttggtt 
aattgtgaa agaatggtc tgaatttca ttttggagt 
tcagtttcc atcattgca agccttggc ccggtttct 
tgttgtttc tcattcagt tggtgcagg aactgacgc 
tgccaacca gttgacttc agctacaga atcacagtt 
gaaagggga ggtgtgtgg tgggaaaac tggaaccaa 
acacagaga aatgcagct gcagttgca gaagaagat 
ccaacagaa gaacgaagt caaagaaag aaaaagaaa 
aatacagtc tcccaaatc cgatccgaa gcccactgt 
gaagaaatc aaagggatc agtgtcgtc gatccgact 
cgaaggttc ccccacatt gacgggtgc gggtgaaag 
cagcaccag tacaagcac cggcagcac cagcacgag 
tcccactca gggcaaatc tatctgtga taaatcgtt 
agatttcac tcaactacc agcgttacc tgactttaa 
aagtttcca aaagcccgt ctgtgaaca acaacaacc 
acaacagca acaacaaaa cggtgtcgg gacctcgac 
gaaagtagc gataccgcg tctagcctc cggtaaagc 
tcaacaaca gcaacgatc gccccaatc gtcccccaa 
gaagcaagt caagaatgc aaagtacaa agccatcca 
acccaaacc gcaaccatg tgataacgc atcgtacaa 
cccgcagac cactgcgga tatcagatc tcaaggtgt 
actacacaa cgtagatag gtgtaagga aagaaaatc 
aagtgatga tgattgtga tgctcccgt ttttccgct 
gccgaggga gaggctcga aagcatcag caatgtcga 
caaggacgc catggacga atatctagg tacaaacaa 
cagccagca cgaagaaga gctgtcgaa atacttcag 
caacaacat cgagacaac ggaccaaga caactccac 
caaactctc ccaactccg tcaactcct cgaacagaa 
cggcatatc cgacaacaa aaatttcct catcgatag 
cggccccac cgtcgcctt gccccaccc catgctcga 
ccctctggc cgtccccaa cgtcaacat ctatccaat 
cccggccca gctctccac attaccgac caaccagag 
cagcgctcg ccgtcgcgt cagcttcga aacgcccct 
ccacgagga caccgtccc tcccagccc aaatactcg 
ccgcaaaaa cttcagctt cacccccat atcaccggg 
cccccaatc gcccaccgg gcgccaatc caagtgttc 
cagcacgaa cgtaagtcc ttttgtgag tccccggaa 
cacaccaat accccgtac taaaaacac gacccacca 
aaacgccgg aatcggcgt ccggaaaaa aatcaaacg 
cgaatccga tctgagcgt cgaaatccc ggacgcgaa 
aaactacat ggccatgtc ggcccccgt cagccccat 
gctatacaa caacaaaaa atcggtcct cgaaaaact 
gctacattc gaacagcaa agtcgccta caccccgga 
ttatgtcaa tccttccgt aaaacacga cgtgagcga 
agtcgattt actcgaaag cgaaaacgt ggagacttt 
cccggactt cacagccta taggtcgca gtcggtccc 
tttgaacca gatgatcaa gtcgaattt caccgaaga 
cgcccactt cctgccgac tctgcccaa tcagggcgc 
cgatttcaa cgacttcga cccgatttc cgaatcggt 
gaccgttaa ccggatcat tgacgccct cgacgagca 
tccgtgcga gaatccggg cactatgga gatgtacaa 
cgtggaaat gcctcaaaa cagccaatg cctgcccag 
ctttaacct cattgtcga caacaacat cgacaactt 
cggcgagaa tatggcctt tgcgcccgg atcgcgtca 
cctggccag gtcgcaaag catcgatgt caattgttt 
cgatatgaa atcggccaa tctcaaccc ttccagatc 
tgtcccaag cacgcccct cccatttaa cagtagcaa 
gcccgcccc cgtgaaaaa cttcgccaa tcagagctc 
gcgctcgta cccgtcgac gccgtcgtt ggtggccga 
gtcggcgtt taactacgc cgttaacgg agactgtct 
gttgaacgg acagccgat acggaacgg aacggcgcg 
gaatcaggc ggatgagtt gacgtattt tatgaattt 
gaacgaaac gaacgagga caataatat cgataggca 
tttaacggc agaggagga gtttagtat agggaggag 
tttgccagg taatgagtt cggtattgc cgaaagtga 
gaatgcttt gatggacga ggacggtgt cttgattgg 
tgagcagac ttttaacgg gaatattaa taattgagg 
aatcgtact aatgccatt tctgcggtt gcaatccgt 
gattatgtt tattgaccc caaattttt attggtgct 
atgataatt ggtttatca ctttgtttg tggcggtca 
gattgtggg aaattggtc ggaacaaac gtgatcatg 
gcgtgttat cgatatctt aatctaaag tttttaatc 
gaaaactca tttttttgc gatgtactg aatcaaaat 
tttatcttt ctttgagat gtattacga tatgaagta 
atgttaatg aaatatttt tggattttc aaggtgata 
gtttttcaa gtagtgtgc tatctcgac atcattttt 
aacataccg ggttttacg atgtcattt tttgttttg 
taagaaata ataattgtt attcccgtc aaattacaa 
ataaagtag atgaaggga ctacgtaac atttttttg 
aaaaaaatt ttaactact ttaattatg tttaattca 
aatgtgttt aacgcattt gtatttttc tgtaaaatt 
tcaagctag ttgttgcta aaggggcta tgtacaagc 
tattataaa atttagttg tggatgaag gggttgtgt 
ccaattaat ttgtattgc ataataatt ttttttttg 
ttggtaaca ttttaagcc ttctttttt atataagaa 
ttctaaatt ataaacact actttaaaa cacgttttc 
ggtagcaac acttctgcg aaaacgctt aaagttctc 
gggtctcca ggtatgcaa ctcgcatac gctcgttgc 
ataacgaca gccctcgaa ctttaactt tagaccctt 
catccatta acccttgca aaaattaaa aaaaataaa 
ccttttgat aaaac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY
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