Status
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Gene information
General information
TC007628 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_007419.2: 2013331..2019447
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
    		TC007628
    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
    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
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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_01231

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (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, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

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

    Comment:
    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
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    Comment: Cuticle almost not visible.
    larva cuticle mostly not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: Cuticle almost not visible.
    larva cuticle thinner - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Comment:
    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007628 RA
      MNLSFAGCG FLGIYHVGV ACCFRKYAP HLLLNKISG 
ASAGAIAAC CLLLDLPLG ETTSDILRV ATEARRRSL 
GPFNPSFNI HSLLLEGLE KFLPDDAHI RVSGKLHIS 
LTRVHDGKN VIVSQFDSR EELIQALLA TAFIPIFSG 
IIPPKFKGV RYMDGGYSD NLPTLDENT ITVSPFCGE 
SDICPRDDS SQLFHINIA NTSIELSKH NIYRIMRIL 
FPPNPEVLS NMCKQGFDD ALRFLHRNN LINCTRCLA 
VQSTFVVSD TLEENLEYD PQCKECKQH RQEALVSNM 
PDTVLSIFQ EAIDSANNG LLNWVFKHR GMKLLSVLS 
LPYTLPADM MYATFTKLM AAAPQVGNT VWDVSKYFM 
DQLSHLLNK VNKKREQIS AKIICQLAV TEYGGRDVE 
ACQDALSTK NKMNLNFTL NLDDSDLPL TQSPGRKFA 
TTKILQRKP SLTINRTDT GDDDTFEHI LQVTSHHET 
IMAYYYLDE NNKVKVTEI FDVTESDSP IVQSSHEKE 
FNKSLEFDD DWDESTWTT THALDDQMY LDERRKSLA 
EMSEYSLED LLDKDTSNL FSDPESEWT GTYRIEEPE 
DEDEMPTAD LRPESDQPS YLRTTTIPS FTFHEES
    CDS sequence
    • >TC007628 RA
      atgaatctt tcgttcgct ggctgcggc ttcctgggc 
atttaccac gtcggagtg gcttgctgc ttccgcaag 
tatgccccc catctgctc ctcaacaaa atctcgggg 
gcctcggcc ggggccatc gccgcctgc tgcctcctc 
ctggacctg ccactaggt gaaacgacc agtgatatc 
cttcgggtg gccacagag gcccggaga cggtctctg 
ggccccttc aacccgtcc ttcaacata cacagcctt 
ttgctggaa ggattagag aagttcctt cccgacgac 
gctcatatc cgtgtcagt gggaagctc cacatttcg 
ttgacacgt gtccacgac ggcaaaaac gtaatcgtt 
tcgcagttc gacagtcgg gaggaactc atccaggcg 
ctcctggcc acagccttc atcccgatt ttttccggg 
attatccca cccaagttc aaaggagtg cgctatatg 
gacgggggg tacagcgat aatttgccg actttggac 
gaaaacaca attactgtc agccccttc tgtggggag 
agtgatatc tgtcccaga gatgatagc tcgcagttg 
tttcatatt aacatagct aatactagt atagagctg 
tcgaagcac aatatttat aggattatg cggattttg 
ttcccgcct aatccggaa gtcttgtca aatatgtgc 
aagcagggg ttcgatgac gcgctccga ttcttgcac 
aggaacaat ctgattaat tgcacgagg tgtctggct 
gttcagtcg acgtttgtc gtttcggac actttggag 
gagaacttg gagtacgac ccccaatgc aaggagtgc 
aagcaacac agacaggaa gcgcttgtc tcaaacatg 
cccgacacc gtcttgagc atcttccaa gaggcgatt 
gattcagcc aacaacggt ctgcttaat tgggtattc 
aaacaccgg ggaatgaaa ctgttatcc gttctaagt 
cttccatac acactgcct gcagatatg atgtacgcc 
acatttacc aagttgatg gctgcggct ccacaagtg 
ggcaacacg gtctgggac gttagtaaa tatttcatg 
gaccagctc tcacacctg ctcaataaa gtcaacaag 
aagcgggaa caaatcagt gcgaaaata atttgccaa 
ttggccgta accgaatac ggaggaaga gatgtcgaa 
gcttgtcag gacgcgctg tccactaaa aataaaatg 
aacttgaac tttactctc aatttagat gatagtgat 
ctacctttg actcaaagt ccgggccgc aagttcgca 
acgactaaa atactccaa cggaagcct agtctgaca 
ataaaccgg accgatacc ggagatgac gacactttc 
gagcacatt ttgcaagta acgtcgcac catgaaacc 
ataatggct tactattat ttggacgaa aataataaa 
gttaaagtc acggagatt ttcgacgtt acggaaagc 
gactccccc atcgtgcaa tcctcccat gagaaggag 
ttcaacaag agtttggag tttgacgat gattgggat 
gagtctact tggaccacc actcacgct ctcgatgat 
caaatgtat ctagacgag aggaggaag agtttggcc 
gaaatgtcc gagtattcg cttgaagat cttctggat 
aaggacacc tcgaacttg ttttcggac ccggaaagc 
gagtggact ggcacttac aggattgaa gagccggaa 
gatgaggat gagatgccc acagctgat ctgagaccg 
gaatcagac caaccgagt tatttaagg accaccacg 
ataccctct ttcacattc cacgaagag tcataa
    mRNA sequence
    • >TC007628 RA
      ccgtactaa ggtattttt aggggtttt tttgtctgc 
aaagattct cgagaaaat ttcattgct ctcttagtt 
gtaggacaa gtgcacaca cgttagaag acagtgaca 
aagcgcgtg ataacgaat tagtgagat ttttatgtg 
atatattgt gatagaaca atgaatctt tcgttcgct 
ggctgcggc ttcctgggc atttaccac gtcggagtg 
gcttgctgc ttccgcaag tatgccccc catctgctc 
ctcaacaaa atctcgggg gcctcggcc ggggccatc 
gccgcctgc tgcctcctc ctggacctg ccactaggt 
gaaacgacc agtgatatc cttcgggtg gccacagag 
gcccggaga cggtctctg ggccccttc aacccgtcc 
ttcaacata cacagcctt ttgctggaa ggattagag 
aagttcctt cccgacgac gctcatatc cgtgtcagt 
gggaagctc cacatttcg ttgacacgt gtccacgac 
ggcaaaaac gtaatcgtt tcgcagttc gacagtcgg 
gaggaactc atccaggcg ctcctggcc acagccttc 
atcccgatt ttttccggg attatccca cccaagttc 
aaaggagtg cgctatatg gacgggggg tacagcgat 
aatttgccg actttggac gaaaacaca attactgtc 
agccccttc tgtggggag agtgatatc tgtcccaga 
gatgatagc tcgcagttg tttcatatt aacatagct 
aatactagt atagagctg tcgaagcac aatatttat 
aggattatg cggattttg ttcccgcct aatccggaa 
gtcttgtca aatatgtgc aagcagggg ttcgatgac 
gcgctccga ttcttgcac aggaacaat ctgattaat 
tgcacgagg tgtctggct gttcagtcg acgtttgtc 
gtttcggac actttggag gagaacttg gagtacgac 
ccccaatgc aaggagtgc aagcaacac agacaggaa 
gcgcttgtc tcaaacatg cccgacacc gtcttgagc 
atcttccaa gaggcgatt gattcagcc aacaacggt 
ctgcttaat tgggtattc aaacaccgg ggaatgaaa 
ctgttatcc gttctaagt cttccatac acactgcct 
gcagatatg atgtacgcc acatttacc aagttgatg 
gctgcggct ccacaagtg ggcaacacg gtctgggac 
gttagtaaa tatttcatg gaccagctc tcacacctg 
ctcaataaa gtcaacaag aagcgggaa caaatcagt 
gcgaaaata atttgccaa ttggccgta accgaatac 
ggaggaaga gatgtcgaa gcttgtcag gacgcgctg 
tccactaaa aataaaatg aacttgaac tttactctc 
aatttagat gatagtgat ctacctttg actcaaagt 
ccgggccgc aagttcgca acgactaaa atactccaa 
cggaagcct agtctgaca ataaaccgg accgatacc 
ggagatgac gacactttc gagcacatt ttgcaagta 
acgtcgcac catgaaacc ataatggct tactattat 
ttggacgaa aataataaa gttaaagtc acggagatt 
ttcgacgtt acggaaagc gactccccc atcgtgcaa 
tcctcccat gagaaggag ttcaacaag agtttggag 
tttgacgat gattgggat gagtctact tggaccacc 
actcacgct ctcgatgat caaatgtat ctagacgag 
aggaggaag agtttggcc gaaatgtcc gagtattcg 
cttgaagat cttctggat aaggacacc tcgaacttg 
ttttcggac ccggaaagc gagtggact ggcacttac 
aggattgaa gagccggaa gatgaggat gagatgccc 
acagctgat ctgagaccg gaatcagac caaccgagt 
tatttaagg accaccacg ataccctct ttcacattc 
cacgaagag tcataagtt aaaaatcgt cattttggt 
gtaaccaaa attgtgata ttgtataaa aaaagatat 
ttattaagt attatatga ccacattat ggctattta 
tgataactt atgatagtt tttagttgt ataaaaatt 
ataaagtat tgttattag ttcaaatta tcttttata 
ttgttcgca ataaaaacg gttgtacta a

    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