Status
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Gene information
General information
TC006624 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_007423.3: 12071461..12075200
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
    		TC006624
    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 *
    {{ blurIdResult }}
    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_01069

    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: 3 (3 dpi)
    Days post injection

    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 not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): less than 30%
    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature irregular - 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): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    posterior terminus not 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): 30% - 50%
    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: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006624 RA
      MSENGSPTL LNLRDFRIQ KKTLSHHSN NGAISSASN 
GAVRRRIIA FSDSDSDCD SSGTNSQSA VTPKPNIVI 
VPNSKNMKN PAVLEKENQ MKYLMSSFP NVDAMVIHD 
VLSRHGFKV DEAASELAR CHAVEFNSQ GYAKWKEAN 
TSNNPESLV KSTGKRKPS PESAPYNKR KKFKRRKSD 
DDTDDSTGS NQDFKDRRV FDSDEDSDV EISDELTGD 
KRKVFEFMQ TATESELQL MSFCSKKKA EAIIEARPF 
TGWVDLVQK LSNNKNLNT DLLNAAQQV LMTRNNIRH 
LMKKCTNLA QQMEKAVAA GAGVKAQPR ILSVSLRLT 
NYQMVGLNW LAVLHAQRV NGILADEMG LGKTVQVIA 
FLAYLKETF QAQNTHLVV VPSSTLDNW RSEFARWCP 
QLRVFMYYG STEERRGFR VDFAKGILA DFDVILTTY 
SLVGNSPEE RKMFRVTPM HYVIFDEAH MLKNMNTQR 
YENLIRINA KHRILLTGT PLQNNLLEL MSLLIFVMP 
KMFAEKTED LKSLFQKTS KSKQTDDTL PPFEREQIE 
QAKRIMKPF VLRRLKCDV LQDLPKKID HVMKVPMAP 
TQKEQYEAL VASYQNAAV EEESAYNGM SIMTDLRKL 
SNHPLLLRY HYDEHQIRE MAKLLVRDP TYKDTVEEY 
IVQDLLFMS DFEINKLTK IHRCLERYM LPDNLILTS 
GKFLYLDKI LAELKQNGH RVLIFSQYV IMLNVMEDY 
LKIRKHKYL RMDGSTPVN ERQDLVDEY MGDNSIFIF 
LLSTRAGGL GINLTSADT VIIHDIDFN PYNDKQAED 
RCHRMGQTR PVTVYRLVS QGTIEEGML EMNKEKLKL 
ERQITTEET DNPDVKSVV RLLSSALGI DSSKANAFV 
SPPKKKT
    CDS sequence
    • >TC006624 RA
      atgtcagag aacggcagc cccacgtta ttaaatttg 
cgcgatttc cgaatacaa aaaaagacg ttaagtcac 
cacagtaac aacggtgca attagctcc gcatccaat 
ggggctgtg aggcgccga ataattgca ttttcagat 
tctgattcc gactgtgat agttctgga acaaattct 
caatctgcg gtgactcca aaaccaaat attgtcatt 
gtccccaat tcgaaaaat atgaagaat ccggccgtt 
ttggagaag gagaaccag atgaagtat ttaatgtcg 
tcattcccg aatgttgat gctatggtt attcacgat 
gtgctgtct cgtcatggg tttaaagta gacgaagcg 
gcgtcggag ttggccagg tgtcacgct gtcgaattc 
aattcgcaa ggttacgcc aagtggaag gaagcgaac 
acttcaaac aatcccgaa agcctggtg aaaagcact 
ggcaagagg aaaccctcc cctgagagc gcgccctac 
aacaaacgg aaaaaattt aaacgtcgg aagtccgat 
gacgacacg gacgacagc actggcagc aatcaggac 
ttcaaagac cgtcgcgtg tttgacagt gacgaggat 
tcggacgtc gaaattagc gatgaatta accggggac 
aagaggaaa gtttttgaa ttcatgcaa acggcaact 
gaaagcgag ctccaattg atgagtttc tgttcaaaa 
aagaaggca gaggcgatc attgaagct agaccattt 
actggctgg gtggattta gtacaaaaa ttgagtaac 
aataaaaac ctaaacacg gatttacta aatgcggca 
caacaagta cttatgact cggaataat attagacac 
ttgatgaag aaatgtaca aacttggcc caacagatg 
gagaaggct gttgctgca ggcgctggg gttaaagcc 
caaccgagg attttatca gtttcgttg cgtttgact 
aattatcaa atggttggg cttaattgg ttggcggtc 
ctgcacgcg caacgggtg aacggtatt ttggccgat 
gaaatgggt ctggggaaa actgtgcaa gttattgcc 
ttcttggcc tatttgaag gagactttc caagcgcaa 
aatactcat cttgtagtg gtgccttcg tcgacttta 
gataattgg aggtccgaa ttcgcccgc tggtgcccc 
caattacgc gtttttatg tactatggt agcacagag 
gagagaagg ggcttccga gttgatttt gcaaagggg 
attttggcc gatttcgat gtgatttta acaacttat 
tcattggtc ggaaacagc ccagaggaa cgcaaaatg 
ttccgcgta acaccgatg cattatgtg attttcgac 
gaggcccac atgctaaaa aacatgaat actcagcgt 
tacgaaaac ctgatcaga atcaatgcg aaacatcgc 
attttgttg accggaacc ccgctccaa aacaatttg 
cttgaactg atgtcgctg ttgattttc gtgatgcca 
aaaatgttt gccgaaaaa accgaagat ttgaaaagt 
ctgttccag aaaacttcc aagtcgaaa caaaccgac 
gatacgttg ccgcccttt gagcgcgaa caaatcgaa 
caggcgaaa cgaatcatg aaaccgttt gttttgaga 
cgattaaag tgtgacgtt ttgcaagat cttcccaaa 
aaaatcgac catgttatg aaggtgcca atggcaccc 
actcagaaa gagcaatat gaggcttta gttgcctcg 
taccaaaat gcagcggtt gaggaggaa agtgcctac 
aatggcatg agcataatg accgatttg aggaaatta 
agcaatcat ccgttgctc ttaagatac cactacgac 
gagcatcaa attagagaa atggccaaa cttttagtc 
agagacccg acgtacaag gacacggtg gaggaatac 
atcgtccaa gatttgttg ttcatgtcc gactttgaa 
atcaataag ttgaccaaa atccaccgg tgtttggag 
cgctacatg cttcccgat aatctcatt ctaacatcg 
ggtaaattt ttatacttg gataaaatc ctagcggag 
ctcaagcaa aacgggcat cgagtgctc atatttagt 
cagtatgtg atcatgttg aacgtaatg gaagactat 
cttaaaatc cgcaagcac aagtatttg agaatggat 
gggagcact ccagttaac gaaagacag gaccttgtt 
gatgaatat atgggggat aacagtatt tttattttc 
ctgctgtcg actcgagca gggggtctt ggtattaac 
ctgacttcg gctgatact gtcattata cacgacatt 
gattttaac ccgtataat gacaaacag gccgaggac 
aggtgtcac aggatgggt cagacgcga cctgtgact 
gtgtacaga ttagtttct cagggtact atagaggag 
ggaatgctc gaaatgaat aaagaaaag ctgaaattg 
gagagacag ataaccacc gaagaaaca gataatcct 
gatgtcaag agtgtggtg agattgctg tcttcagcc 
ttgggtatt gatagttca aaagccaac gcgttcgtg 
tccccacca aaaaagaag acgtga
    mRNA sequence
    • >TC006624 RA
      atgaattga agtacgaaa agtgtgctt tggattaat 
tttacgttt cattgtttt aagacgcta cacaaaaaa 
aaccaattt tacttcaac tggtgttta tttacaata 
aatgcgtta aataattta acgttaacg ttgggtaga 
ggactttgt attttcggg aaatttatt atttattag 
tttatgaga gttggtttt aaattactt gcgcgaatt 
ttgcgcttt tgcctcatt gctgccacc tgtgagcgg 
caataatcc cactcttct accatcgtc tgtcaaagg 
tgtctggtg cctcaatga gaacgattt tgtagtttt 
atacttaat attttatgt tatttataa aattgtaac 
tggcgcaat gtcagagaa cggcagccc cacgttatt 
aaatttgcg cgatttccg aatacaaaa aaagacgtt 
aagtcacca cagtaacaa cggtgcaat tagctccgc 
atccaatgg ggctgtgag gcgccgaat aattgcatt 
ttcagattc tgattccga ctgtgatag ttctggaac 
aaattctca atctgcggt gactccaaa accaaatat 
tgtcattgt ccccaattc gaaaaatat gaagaatcc 
ggccgtttt ggagaagga gaaccagat gaagtattt 
aatgtcgtc attcccgaa tgttgatgc tatggttat 
tcacgatgt gctgtctcg tcatgggtt taaagtaga 
cgaagcggc gtcggagtt ggccaggtg tcacgctgt 
cgaattcaa ttcgcaagg ttacgccaa gtggaagga 
agcgaacac ttcaaacaa tcccgaaag cctggtgaa 
aagcactgg caagaggaa accctcccc tgagagcgc 
gccctacaa caaacggaa aaaatttaa acgtcggaa 
gtccgatga cgacacgga cgacagcac tggcagcaa 
tcaggactt caaagaccg tcgcgtgtt tgacagtga 
cgaggattc ggacgtcga aattagcga tgaattaac 
cggggacaa gaggaaagt ttttgaatt catgcaaac 
ggcaactga aagcgagct ccaattgat gagtttctg 
ttcaaaaaa gaaggcaga ggcgatcat tgaagctag 
accatttac tggctgggt ggatttagt acaaaaatt 
gagtaacaa taaaaacct aaacacgga tttactaaa 
tgcggcaca acaagtact tatgactcg gaataatat 
tagacactt gatgaagaa atgtacaaa cttggccca 
acagatgga gaaggctgt tgctgcagg cgctggggt 
taaagccca accgaggat tttatcagt ttcgttgcg 
tttgactaa ttatcaaat ggttgggct taattggtt 
ggcggtcct gcacgcgca acgggtgaa cggtatttt 
ggccgatga aatgggtct ggggaaaac tgtgcaagt 
tattgcctt cttggccta tttgaagga gactttcca 
agcgcaaaa tactcatct tgtagtggt gccttcgtc 
gactttaga taattggag gtccgaatt cgcccgctg 
gtgccccca attacgcgt ttttatgta ctatggtag 
cacagagga gagaagggg cttccgagt tgattttgc 
aaaggggat tttggccga tttcgatgt gattttaac 
aacttattc attggtcgg aaacagccc agaggaacg 
caaaatgtt ccgcgtaac accgatgca ttatgtgat 
tttcgacga ggcccacat gctaaaaaa catgaatac 
tcagcgtta cgaaaacct gatcagaat caatgcgaa 
acatcgcat tttgttgac cggaacccc gctccaaaa 
caatttgct tgaactgat gtcgctgtt gattttcgt 
gatgccaaa aatgtttgc cgaaaaaac cgaagattt 
gaaaagtct gttccagaa aacttccaa gtcgaaaca 
aaccgacga tacgttgcc gccctttga gcgcgaaca 
aatcgaaca ggcgaaacg aatcatgaa accgtttgt 
tttgagacg attaaagtg tgacgtttt gcaagatct 
tcccaaaaa aatcgacca tgttatgaa ggtgccaat 
ggcacccac tcagaaaga gcaatatga ggctttagt 
tgcctcgta ccaaaatgc agcggttga ggaggaaag 
tgcctacaa tggcatgag cataatgac cgatttgag 
gaaattaag caatcatcc gttgctctt aagatacca 
ctacgacga gcatcaaat tagagaaat ggccaaact 
tttagtcag agacccgac gtacaagga cacggtgga 
ggaatacat cgtccaaga tttgttgtt catgtccga 
ctttgaaat caataagtt gaccaaaat ccaccggtg 
tttggagcg ctacatgct tcccgataa tctcattct 
aacatcggg taaattttt atacttgga taaaatcct 
agcggagct caagcaaaa cgggcatcg agtgctcat 
atttagtca gtatgtgat catgttgaa cgtaatgga 
agactatct taaaatccg caagcacaa gtatttgag 
aatggatgg gagcactcc agttaacga aagacagga 
ccttgttga tgaatatat gggggataa cagtatttt 
tattttcct gctgtcgac tcgagcagg gggtcttgg 
tattaacct gacttcggc tgatactgt cattataca 
cgacattga ttttaaccc gtataatga caaacaggc 
cgaggacag gtgtcacag gatgggtca gacgcgacc 
tgtgactgt gtacagatt agtttctca gggtactat 
agaggaggg aatgctcga aatgaataa agaaaagct 
gaaattgga gagacagat aaccaccga agaaacaga 
taatcctga tgtcaagag tgtggtgag attgctgtc 
ttcagcctt gggtattga tagttcaaa agccaacgc 
gttcgtgtc cccaccaaa aaagaagac gtgaacgtg 
ttatgtttt agttactgt tagttttcc cgtaactga 
tctgcattt gttaagtta gtctctgtg ttaatcaac 
aataaaata ttttcctta at

    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