Status
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Gene information
General information
TC004970 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_007417.3: 5375365..5380044
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
    		TC004970
    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_10645

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

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

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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): less than 30%
    head remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    head capsule shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs structure irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs size decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs podomer potentially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    metathorax not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    mesothorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax segmentation/division irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    legs sometimes randomstructure not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: % (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
    • >TC004970 RA
      MDIFLFMFL VFISFLIGI IVTLVVQYY ILYSYFKTS 
PVVTPNEKK CSTDYVLPE SLKKQLDSE ELNDATSLS 
VSLVLQFLF HELRHSEAI KRWLYKKLS LEFEELLTK 
TTIGKFFEV INIRDMNLG NNFPNIKKI SIEDVKLDN 
KEGHIDTVS LCLDVDYTG NFLLSVDAK MKFGKTAYL 
SIKVNKVNG LVRLQFTRH PYTHWSFSF FQDPIIELE 
VESHFQGRQ LQSNITSLI VNQIKKAIR RKHTLPNYK 
IRYKPFFIK TDPSQLDTD DSEIVPQGQ LEVTCIDVT 
RLEFSNAVQ NVYCTVAVD TIPWICVYE SDERTFMIL 
EITMTKLKQ AQLGVIFKP EKSSVAVES VSPHSCAFK 
SGLKPGDIV LAVENKSVS SVPQVAKFI KSVTSTHVT 
LRVKRLVDS YVLRKKHFD KNSTDEMDQ DESSFFIVD 
SVETPKKPA EKIPKSLSS NENVSKFAQ TIGNFSLRK 
RKASVSDKS STEVSCKST PTSSSPGTP QHGVFKQHT 
SPLLAGKKQ SISEIPEIL RENSESEII EVGKSKELG 
PTSVLYFNE DFQFSLKKG LKYLNVNVW GTVTDDKDV 
LLGYANIPL SHILNECFN SVLGHYMRR YSFLPPAFC 
HSNNQSHPL MAHSGFEHV FCYGDILLS FIWSHEDDI 
EVKRKMSQD ILNTDIEQI STSTALKHD FIRTQFHRT 
THCDFCSKK IWLKDAVQC RECGLCCHK KCIAKCQTS 
TACIQGDKK TEPEAVQPE ITMTEPPDE MTEYAEGGL 
KRVNSVKNL AIPGAHLLS TVSKSLPPS PQRTPSRKQ 
SMSNINPFA LCPGVLEDV QKKPEEASE SVNRLLEQV 
MQCPPDETL MDVAKETGR QLYANMPHE EKVEKINIM 
MAELKKTLD SVTMEHMEL SKQLSSQES DAEKTKLAF 
LIGQADAKV QGLSVLMLH YCSSLQHTQ EKIV
    CDS sequence
    • >TC004970 RA
      atggatata tttttgttc atgttccta gtttttata 
tctttttta attggtatt atagtgact ctcgtggtg 
caatattat attttgtat tcttatttt aaaacaagt 
ccagtggtc acaccaaat gagaaaaag tgttctact 
gattacgtt ttaccagag tctttgaaa aaacaattg 
gatagtgaa gaattgaac gatgcgacg agtttatcg 
gttagcctg gttttacag tttttgttt cacgaattg 
aggcattct gaggctatt aaacgatgg ctttataag 
aagctgagt cttgagttt gaggaacta ctaactaaa 
actaccata gggaaattt ttcgaagtc attaatatt 
agggatatg aacttaggt aacaacttt ccaaatatt 
aaaaaaatc agtattgaa gatgtgaaa ttagataat 
aaggaagga cacatagac actgtcagt ttatgtcta 
gatgtagat tatacagga aacttttta cttagtgtt 
gatgccaaa atgaaattt ggaaaaact gcatattta 
tcaattaag gttaataaa gtcaacgga cttgtaaga 
cttcagttt acaagacat ccgtacaca cactggtct 
ttcagcttt tttcaagac cccattata gaattagaa 
gttgaatca cactttcag ggacgtcaa ttacagtca 
aacatcaca agtcttatc gtaaaccaa ataaaaaaa 
gccatcaga cgaaaacac acactacca aattacaaa 
atcagatac aaaccgttc tttatcaaa actgaccct 
agccaacta gacacggac gatagcgaa atcgtccct 
cagggccaa cttgaagtc acatgcata gatgtcaca 
cgacttgag ttctcaaat gcggttcaa aacgtttat 
tgcactgtt gcagttgac acgattcct tggatttgt 
gtttatgaa tcagatgag cgcactttc atgattcta 
gaaatcaca atgactaaa ttaaaacag gcccaactt 
ggagtgatt ttcaagccg gaaaaaagc tcagtggct 
gttgaaagc gtctctcca cacagttgc gccttcaaa 
tctggcctc aaacccggc gatattgtt ttagcagtt 
gagaataaa tcggtttcg agcgttccc caagtcgcc 
aaatttatc aaatcagtg acttcgact catgtcact 
cttcgagtg aaaagactg gtcgattcg tacgttttg 
cgcaagaaa cacttcgat aaaaactca actgatgag 
atggaccaa gacgaaagc agcttcttc attgttgat 
agcgtggaa acgccgaaa aaaccggcg gagaaaatc 
ccgaaaagt ctttcaagc aacgaaaac gtctcgaaa 
tttgctcaa acgatcggt aattttagt ttgcgcaaa 
cggaaggct tccgtttcg gataaatcg tcaacggaa 
gtgagttgt aaaagtaca ccgacgtct agtagccct 
ggaaccccg caacatgga gtgtttaaa caacataca 
agcccgcta ttggctggg aaaaaacaa tcgatctcg 
gaaataccc gaaattttg cgcgaaaat tccgaaagt 
gaaattatc gaggtcggg aaaagcaaa gagttgggc 
ccgacttcg gtgctttat ttcaatgaa gactttcaa 
tttagcctc aaaaagggg ctcaagtac ttgaatgtc 
aacgtttgg ggtacagtg actgatgat aaagatgtt 
ttgttggga tatgcgaat attcccttg agccatatt 
ttgaacgaa tgttttaat agcgttcta gggcactac 
atgagacgg tactctttt ctaccgccg gcgttttgc 
cattctaat aaccaatca cacccactc atggcacac 
tctggcttc gaacacgtc ttttgctac ggagatatt 
cttttgtct ttcatttgg tcgcatgag gacgatatc 
gaagttaag cgtaaaatg tcgcaagat attttaaac 
acagacatt gaacaaatt tcaacttca acagctctc 
aagcacgac ttcatcaga acgcagttt caccgaaca 
actcactgc gatttctgc tcgaaaaag atttggctc 
aaagacgcg gtccagtgc cgcgaatgc ggtctctgt 
tgccacaaa aaatgcata gccaagtgt caaacgagc 
actgcatgc atccaaggt gacaaaaaa accgaaccg 
gaagcggtc caaccggaa ataaccatg acggaacca 
cccgacgaa atgaccgaa tatgcagaa ggggggttg 
aaacgagta aacagtgtg aaaaattta gcaatacca 
ggtgcgcat ttattgtca actgtttcg aaaagtttg 
cctccatcg ccccaacga acgccaagt cgcaaacaa 
tccatgtct aatataaat ccattcgct ttgtgtcct 
ggtgtttta gaagacgtt cagaaaaaa ccggaagaa 
gcctctgaa agtgtgaac cgacttttg gaacaagtc 
atgcaatgc ccccctgat gagacgctc atggatgtg 
gctaaagaa acgggaagg caactctat gccaatatg 
ccacatgag gagaaagtt gaaaaaatc aacattatg 
atggcagag ctgaagaag acgctagat tcagtgacc 
atggagcat atggaactg tcgaaacag ctaagtagc 
caagaatcg gacgctgag aagacgaaa ctggcgttt 
ctgattggt caagccgat gctaaggtt caaggatta 
tcagtattg atgcttcat tattgttcc agtttacag 
catactcaa gaaaaaatt gtgtag
    mRNA sequence
    • >TC004970 RA
      tcttgagaa aaaaacaga aaaaggaaa atcatgttt 
ggctttttt tgacgctta tcatatatg agataagca 
caagggggc tataaaatg gtaaactga ctccacttt 
gtgttattt cgaacaaaa cgggcctaa aaatggtga 
taatataat ttaaagcgc tatggatat atttttgtt 
catgttcct agtttttat atctttttt aattggtat 
tatagtgac tctcgtggt gcaatatta tattttgta 
ttcttattt taaaacaag tccagtggt cacaccaaa 
tgagaaaaa gtgttctac tgattacgt tttaccaga 
gtctttgaa aaaacaatt ggatagtga agaattgaa 
cgatgcgac gagtttatc ggttagcct ggttttaca 
gtttttgtt tcacgaatt gaggcattc tgaggctat 
taaacgatg gctttataa gaagctgag tcttgagtt 
tgaggaact actaactaa aactaccat agggaaatt 
tttcgaagt cattaatat tagggatat gaacttagg 
taacaactt tccaaatat taaaaaaat cagtattga 
agatgtgaa attagataa taaggaagg acacataga 
cactgtcag tttatgtct agatgtaga ttatacagg 
aaacttttt acttagtgt tgatgccaa aatgaaatt 
tggaaaaac tgcatattt atcaattaa ggttaataa 
agtcaacgg acttgtaag acttcagtt tacaagaca 
tccgtacac acactggtc tttcagctt ttttcaaga 
ccccattat agaattaga agttgaatc acactttca 
gggacgtca attacagtc aaacatcac aagtcttat 
cgtaaacca aataaaaaa agccatcag acgaaaaca 
cacactacc aaattacaa aatcagata caaaccgtt 
ctttatcaa aactgaccc tagccaact agacacgga 
cgatagcga aatcgtccc tcagggcca acttgaagt 
cacatgcat agatgtcac acgacttga gttctcaaa 
tgcggttca aaacgttta ttgcactgt tgcagttga 
cacgattcc ttggatttg tgtttatga atcagatga 
gcgcacttt catgattct agaaatcac aatgactaa 
attaaaaca ggcccaact tggagtgat tttcaagcc 
ggaaaaaag ctcagtggc tgttgaaag cgtctctcc 
acacagttg cgccttcaa atctggcct caaacccgg 
cgatattgt tttagcagt tgagaataa atcggtttc 
gagcgttcc ccaagtcgc caaatttat caaatcagt 
gacttcgac tcatgtcac tcttcgagt gaaaagact 
ggtcgattc gtacgtttt gcgcaagaa acacttcga 
taaaaactc aactgatga gatggacca agacgaaag 
cagcttctt cattgttga tagcgtgga aacgccgaa 
aaaaccggc ggagaaaat cccgaaaag tctttcaag 
caacgaaaa cgtctcgaa atttgctca aacgatcgg 
taattttag tttgcgcaa acggaaggc ttccgtttc 
ggataaatc gtcaacgga agtgagttg taaaagtac 
accgacgtc tagtagccc tggaacccc gcaacatgg 
agtgtttaa acaacatac aagcccgct attggctgg 
gaaaaaaca atcgatctc ggaaatacc cgaaatttt 
gcgcgaaaa ttccgaaag tgaaattat cgaggtcgg 
gaaaagcaa agagttggg cccgacttc ggtgcttta 
tttcaatga agactttca atttagcct caaaaaggg 
gctcaagta cttgaatgt caacgtttg gggtacagt 
gactgatga taaagatgt tttgttggg atatgcgaa 
tattccctt gagccatat tttgaacga atgttttaa 
tagcgttct agggcacta catgagacg gtactcttt 
tctaccgcc ggcgttttg ccattctaa taaccaatc 
acacccact catggcaca ctctggctt cgaacacgt 
cttttgcta cggagatat tcttttgtc tttcatttg 
gtcgcatga ggacgatat cgaagttaa gcgtaaaat 
gtcgcaaga tattttaaa cacagacat tgaacaaat 
ttcaacttc aacagctct caagcacga cttcatcag 
aacgcagtt tcaccgaac aactcactg cgatttctg 
ctcgaaaaa gatttggct caaagacgc ggtccagtg 
ccgcgaatg cggtctctg ttgccacaa aaaatgcat 
agccaagtg tcaaacgag cactgcatg catccaagg 
tgacaaaaa aaccgaacc ggaagcggt ccaaccgga 
aataaccat gacggaacc acccgacga aatgaccga 
atatgcaga aggggggtt gaaacgagt aaacagtgt 
gaaaaattt agcaatacc aggtgcgca tttattgtc 
aactgtttc gaaaagttt gcctccatc gccccaacg 
aacgccaag tcgcaaaca atccatgtc taatataaa 
tccattcgc tttgtgtcc tggtgtttt agaagacgt 
tcagaaaaa accggaaga agcctctga aagtgtgaa 
ccgactttt ggaacaagt catgcaatg cccccctga 
tgagacgct catggatgt ggctaaaga aacgggaag 
gcaactcta tgccaatat gccacatga ggagaaagt 
tgaaaaaat caacattat gatggcaga gctgaagaa 
gacgctaga ttcagtgac catggagca tatggaact 
gtcgaaaca gctaagtag ccaagaatc ggacgctga 
gaagacgaa actggcgtt tctgattgg tcaagccga 
tgctaaggt tcaaggatt atcagtatt gatgcttca 
ttattgttc cagtttaca gcatactca agaaaaaat 
tgtgtaggc gctttttgt ctactaatt aaatttctt 
gaaacaaaa aagcatatc atcgtgacc ccggtactt 
aatttttgc atttatgac actcctcta gtcaattaa 
ttttcacgt attgtagca tttttagtt tttacacgt 
ttttaggaa cattaacta tacttactg tgatagcgt 
aggatgtag taagataat ttttaatat ttatagtga 
ctagatgta tgtgcaaaa ttgtctcta attattggt 
tataatccc ggcaaaaag agtgaaata aagctttaa 
cattgttgt attttttgc gtccatgtc agtatttta 
gttttttat ttttttggc aacttggcc caacgttaa 
tttgtgaac aaattcttt atgtaatat attttgtat 
agtaaattt tgcctgctt cacataatg gtcttttat 
ttcaaacaa ttacgaatg aaactatgg tttaatagg 
taataaata aataaaggt aataaaggt acctccata 
cctttatta aaaaattaa aaaagttta gacttgcgt 
tttcttgga gtcatttct gaaatttat cttctgtga 
tatagcaga aaatttaaa cattttttt gacggtact 
tgctatttt aaaattata gaaaaatgg caacagcgc 
acttacatg ttttggggt caaataggt cacaaataa 
aaatttatg tgaaattag tgacaaatt tagtgttaa 
gaaaactcc ctagttaaa

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY