Status
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Gene information
General information
TC004800 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: 7406566..7412683
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
    TC004800
    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_02956

    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: 20.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    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): less than 30%

    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: App. 35% are affected.
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    gena triplet orientation irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen bristle irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment partially fused - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004800 RA
      MDDDDITVR VAIRIRPQT PREIIDMCQ ICTFVQPGE 
      PQVTLGNDK TFSYNYVFD TDTSQESVY ETCVAALVD 
      SSLEGYNAT VLAYGQTGS GKTYTMGSG FDVELLPEQ 
      VGIIPRAIH HLFDGIQNR INRAHESGE IPPEFKVTT 
      QFMELYNEE VIDLFNPSS GKDTVYKIH EGGGGIQIK 
      GITQKTVTS AEETLQCLR LGALSRTTA STQMNTQSS 
      RSHAIFTLH VKQQRIVPL TNSDTNEFE TLTSKFHFV 
      DLAGSERLK RTGATGERA KEGISINCG LLALGNVIS 
      ALGDKSKKA THIPYRDSK LTRLLQDSL GGNSQTVMI 
      ACVSPSDRD FMETLNTLK YANRARNIK NKVFVNQDK 
      TSKTISQLK QQIAQLQLE LVEYKQGKR LVGQDGTEM 
      VNDMFYENN MLQGEVNNL RTRVKAMQD TIDSLTLKN 
      TNLLAEKAT GAWIGGSSD NDVACMVQA YLKEIEELR 
      AKLMESTNT CEQLRKQIN RLQTSPQHN ATLAQLDEN 
      MALIEEAKK ELQREKYLL EKQLDSEPD SDNEYDSGS 
      EKDDHTQLN DELITLTND IDMKQKLID ELELSHRRM 
      QTMRQHYED KLMQLQTRI KNTQEERDK ILHSYSARE 
      PSDKIKKIK DEYTKKLSD MQKELKKLQ AAQKEHARL 
      LRSQSQHEN QLKSYKNEL LEMKRAKVK LINKMKEES 
      QKHKESELR RMREIAQLR KESRKKANM IKTMEAERQ 
      LKDKVLKRK QEEVSVLRK NQKVYLSTK AAGRLREAF 
      SERAAKQKW LRMEKSINN IALSRRGLV EQEVRMEHF 
      LEKREALGK ELEALEERR EQAVQKNQD LTHLDSYIE 
      DIKENINYV QETISETQH NVMEIEESQ DTNECAHFQ 
      TIIDSVCDI EEAKYLIQK LFNMTLSQS HAVVQRDAK 
      LKENETTLT ELKQENQLR GQLLDHMVH SEFPIFSKE 
      LTTSVSSNA NDTSSNASS RSASPSLLV PESSSQSCV 
      AKIRRRTAL PSELLYGAS SSSMGPYNL QVSVSMERV 
      PSDPGSPKL NL
    CDS sequence
    • >TC004800 RA
      atggatgat gacgatatc acagtacga gtcgctatc 
      aggattcgt ccgcaaacg ccgagagag atcatagat 
      atgtgccag atttgcacg tttgtccag ccaggagag 
      ccacaagtt actttaggg aatgacaaa actttttcg 
      tataattat gtctttgat accgatact agtcaagag 
      agcgtttac gagacgtgc gttgccgct ttggttgat 
      tcctcctta gaagggtac aatgcaacg gtgctggct 
      tatggtcag acgggttct ggcaaaact tacaccatg 
      ggatcaggg tttgatgtt gagttattg ccagaacaa 
      gtcgggatt atacctcga gctatacat catcttttc 
      gatggcatc caaaatcgt atcaaccgg gcacacgaa 
      agcggcgaa attcccccc gaatttaaa gtaacgact 
      caatttatg gagttgtac aacgaggaa gtgattgat 
      ctgtttaac ccttcgagt gggaaagat acggtttat 
      aaaattcac gaaggcggt ggtggtatt caaatcaag 
      ggaattacg caaaagacg gtaacgtca gccgaggaa 
      acgttgcaa tgcttgcga ttaggtgcc ctttcgcgg 
      actacagct agcacccaa atgaatacc cagtcgtct 
      cgatcgcat gcaattttt acgttacat gtgaagcaa 
      caacgaatc gtgccttta actaatagt gatacaaac 
      gaatttgaa acgcttacg tccaagttt cactttgta 
      gatctcgcc ggttccgag cgtttgaaa agaaccggt 
      gctacgggt gaaagggcg aaagaaggg atatcaata 
      aactgtggt ctattagct ttaggtaat gtcatatcg 
      gcattaggg gataagtcg aaaaaggca acacatatc 
      ccttaccga gactcaaaa ctaactcgc ctcttacaa 
      gatagtctt ggaggcaat agtcagact gtgatgata 
      gcctgtgta agccccagt gatcgggac ttcatggaa 
      accttaaat acgctaaaa tacgccaac agagcccgc 
      aacatcaaa aacaaagtc ttcgtgaat caagacaag 
      acttcgaaa acaatatcg caactcaag caacaaatc 
      gcccagctc cagttggaa ctagtcgag tacaaacag 
      ggcaagcgc ctggtgggc caagacggc accgaaatg 
      gtcaacgac atgttctac gagaacaac atgctccaa 
      ggcgaagtc aacaatctc cgcacgcgc gtcaaagcc 
      atgcaagac accatcgac tccctcacc ctcaaaaac 
      acaaacctc ctggccgag aaggccacc ggggcctgg 
      atcggcggc agcagcgac aacgacgtc gcatgcatg 
      gtccaagcc tacctcaaa gaaatcgaa gaactcagg 
      gcgaaacta atggaatcc accaacacc tgcgaacaa 
      ctccgcaag caaatcaac cgcttgcaa acctccccc 
      cagcacaac gccaccctc gcccaactc gacgagaac 
      atggcgctg atcgaggaa gccaagaag gagctccaa 
      cgcgaaaag tacctcctg gagaagcag ctcgacagc 
      gagcccgac agcgacaac gaatacgac agcgggagc 
      gaaaaggac gaccatacg cagctcaac gacgagctg 
      atcactctc acaaacgac atcgacatg aagcagaaa 
      ctcatcgac gagctggag ctgtcccac cgacgcatg 
      caaaccatg cgccagcac tacgaagac aagctcatg 
      cagctccaa accaggatc aagaacacg caagaggaa 
      cgcgacaag atcttgcat tcgtacagc gcgcgggaa 
      ccgtccgac aaaatcaag aaaatcaaa gatgagtac 
      accaagaaa ctctccgac atgcagaag gagctgaag 
      aagctccaa gccgcccag aaggagcac gcccgcctc 
      ctgcgcagc caaagccag cacgagaac cagctcaaa 
      tcgtacaaa aacgaactc cttgaaatg aagcgcgcc 
      aaagtgaaa ctcatcaac aagatgaag gaggagtcg 
      caaaagcac aaggagtcc gagctgcgc cgaatgcgg 
      gagatcgca caattgagg aaagagtcg cgcaaaaaa 
      gccaatatg attaaaacc atggaagcc gagcgacag 
      ctcaaagac aaggttttg aagcgcaaa caagaggaa 
      gtctccgtt ttgcggaag aatcagaag gtttatttg 
      agcacaaag gcggcggga cggctgcgg gaggctttc 
      tcggaacga gcagccaag cagaaatgg ctgaggatg 
      gagaagtct attaataac atcgcgctg agtcggcga 
      ggtctcgtg gaacaggaa gtccgaatg gagcatttt 
      ctcgaaaag agggaagcg ttggggaag gaactcgag 
      gctttggag gaacggcgc gagcaggcc gtgcagaaa 
      aaccaagac ctgacgcac ttggacagc tacattgaa 
      gacatcaag gaaaacatc aactacgtc caggaaacg 
      atcagtgag acccaacac aatgtgatg gaaatcgag 
      gagtcgcaa gacaccaac gaatgtgcc cacttccaa 
      actatcatc gattccgtt tgtgatatt gaagaagcc 
      aaatatttg atccagaag ttgttcaac atgacgctg 
      agtcaaagc cacgccgtc gtccaacgc gacgctaaa 
      ttgaaagaa aacgagacg actctcacc gagttgaag 
      caagagaac cagctcaga ggccagttg ctggaccac 
      atggtgcac agcgaattc cccatattt tcgaaggag 
      ctgacaaca agcgtctca agcaatgcg aatgacacg 
      agctcgaat gcgtcttca aggtcggcc tcaccgtcg 
      ctactggtg cctgaatct tcctcgcaa agttgcgtc 
      gcgaaaatc agacgacgg acggctttg cccagcgaa 
      ttgctctac ggcgcaagc agctcgtca atggggccc 
      tacaacttg caagtttcc gtttcaatg gagcgcgtc 
      ccgagtgac cccgggagt cctaagttg aatttatga
    mRNA sequence
    • >TC004800 RA
      cgtggcagt ggcagaatt agggacagg tccgactca 
      aaaattggg tgccgaggc agtgctgta aagtggtgt 
      tttccgacc gcctcaggt gatactcgt ccagcagtt 
      gtcctgcgt cggcagcat gcgatttac cttggtgga 
      gatggaaag gagcgacac gatattatt cttctcttc 
      tattctaat ccataccac tcttgtgtc ccgtagaac 
      gttgttgtg ggctcggaa gtaactttc actttccga 
      tccacatgt gatttttgt gaataacaa cccgattta 
      aatgtgtcc tcgcaaatg atttaaatc gatgttggg 
      tttatgtga cagttttgc caaatcctt acattttat 
      tacttgtga aatgcaaat gagtgttaa gttttaaac 
      ggagttaat ttttaccga ccatggatg atgacgata 
      tcacagtac gagtcgcta tcaggattc gtccgcaaa 
      cgccgagag agatcatag atatgtgcc agatttgca 
      cgtttgtcc agccaggag agccacaag ttactttag 
      ggaatgaca aaacttttt cgtataatt atgtctttg 
      ataccgata ctagtcaag agagcgttt acgagacgt 
      gcgttgccg ctttggttg attcctcct tagaagggt 
      acaatgcaa cggtgctgg cttatggtc agacgggtt 
      ctggcaaaa cttacacca tgggatcag ggtttgatg 
      ttgagttat tgccagaac aagtcggga ttatacctc 
      gagctatac atcatcttt tcgatggca tccaaaatc 
      gtatcaacc gggcacacg aaagcggcg aaattcccc 
      ccgaattta aagtaacga ctcaattta tggagttgt 
      acaacgagg aagtgattg atctgttta acccttcga 
      gtgggaaag atacggttt ataaaattc acgaaggcg 
      gtggtggta ttcaaatca agggaatta cgcaaaaga 
      cggtaacgt cagccgagg aaacgttgc aatgcttgc 
      gattaggtg ccctttcgc ggactacag ctagcaccc 
      aaatgaata cccagtcgt ctcgatcgc atgcaattt 
      ttacgttac atgtgaagc aacaacgaa tcgtgcctt 
      taactaata gtgatacaa acgaatttg aaacgctta 
      cgtccaagt ttcactttg tagatctcg ccggttccg 
      agcgtttga aaagaaccg gtgctacgg gtgaaaggg 
      cgaaagaag ggatatcaa taaactgtg gtctattag 
      ctttaggta atgtcatat cggcattag gggataagt 
      cgaaaaagg caacacata tcccttacc gagactcaa 
      aactaactc gcctcttac aagatagtc ttggaggca 
      atagtcaga ctgtgatga tagcctgtg taagcccca 
      gtgatcggg acttcatgg aaaccttaa atacgctaa 
      aatacgcca acagagccc gcaacatca aaaacaaag 
      tcttcgtga atcaagaca agacttcga aaacaatat 
      cgcaactca agcaacaaa tcgcccagc tccagttgg 
      aactagtcg agtacaaac agggcaagc gcctggtgg 
      gccaagacg gcaccgaaa tggtcaacg acatgttct 
      acgagaaca acatgctcc aaggcgaag tcaacaatc 
      tccgcacgc gcgtcaaag ccatgcaag acaccatcg 
      actccctca ccctcaaaa acacaaacc tcctggccg 
      agaaggcca ccggggcct ggatcggcg gcagcagcg 
      acaacgacg tcgcatgca tggtccaag cctacctca 
      aagaaatcg aagaactca gggcgaaac taatggaat 
      ccaccaaca cctgcgaac aactccgca agcaaatca 
      accgcttgc aaacctccc cccagcaca acgccaccc 
      tcgcccaac tcgacgaga acatggcgc tgatcgagg 
      aagccaaga aggagctcc aacgcgaaa agtacctcc 
      tggagaagc agctcgaca gcgagcccg acagcgaca 
      acgaatacg acagcggga gcgaaaagg acgaccata 
      cgcagctca acgacgagc tgatcactc tcacaaacg 
      acatcgaca tgaagcaga aactcatcg acgagctgg 
      agctgtccc accgacgca tgcaaacca tgcgccagc 
      actacgaag acaagctca tgcagctcc aaaccagga 
      tcaagaaca cgcaagagg aacgcgaca agatcttgc 
      attcgtaca gcgcgcggg aaccgtccg acaaaatca 
      agaaaatca aagatgagt acaccaaga aactctccg 
      acatgcaga aggagctga agaagctcc aagccgccc 
      agaaggagc acgcccgcc tcctgcgca gccaaagcc 
      agcacgaga accagctca aatcgtaca aaaacgaac 
      tccttgaaa tgaagcgcg ccaaagtga aactcatca 
      acaagatga aggaggagt cgcaaaagc acaaggagt 
      ccgagctgc gccgaatgc gggagatcg cacaattga 
      ggaaagagt cgcgcaaaa aagccaata tgattaaaa 
      ccatggaag ccgagcgac agctcaaag acaaggttt 
      tgaagcgca aacaagagg aagtctccg ttttgcgga 
      agaatcaga aggtttatt tgagcacaa aggcggcgg 
      gacggctgc gggaggctt tctcggaac gagcagcca 
      agcagaaat ggctgagga tggagaagt ctattaata 
      acatcgcgc tgagtcggc gaggtctcg tggaacagg 
      aagtccgaa tggagcatt ttctcgaaa agagggaag 
      cgttgggga aggaactcg aggctttgg aggaacggc 
      gcgagcagg ccgtgcaga aaaaccaag acctgacgc 
      acttggaca gctacattg aagacatca aggaaaaca 
      tcaactacg tccaggaaa cgatcagtg agacccaac 
      acaatgtga tggaaatcg aggagtcgc aagacacca 
      acgaatgtg cccacttcc aaactatca tcgattccg 
      tttgtgata ttgaagaag ccaaatatt tgatccaga 
      agttgttca acatgacgc tgagtcaaa gccacgccg 
      tcgtccaac gcgacgcta aattgaaag aaaacgaga 
      cgactctca ccgagttga agcaagaga accagctca 
      gaggccagt tgctggacc acatggtgc acagcgaat 
      tccccatat tttcgaagg agctgacaa caagcgtct 
      caagcaatg cgaatgaca cgagctcga atgcgtctt 
      caaggtcgg cctcaccgt cgctactgg tgcctgaat 
      cttcctcgc aaagttgcg tcgcgaaaa tcagacgac 
      ggacggctt tgcccagcg aattgctct acggcgcaa 
      gcagctcgt caatggggc cctacaact tgcaagttt 
      ccgtttcaa tggagcgcg tcccgagtg accccggga 
      gtcctaagt tgaatttat gataaaaca ccgagtgcg 
      tatcacacg aagcgaggg gagcagccc gatcgggac 
      cgaagtcat cacctggcg ttgtataaa tcatcgttt 
      ttttacaaa taacattgc aacattact gactgtact 
      tataatgtt tttaataat cctcctgat gttgttact 
      atttttatg attaattat ttattttaa gcgatttac 
      atggagttt ttatatggt tgtgtccac taat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY