General information | |||
TC030683 | 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: 11891076..11893629 | |
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. | |||
Closest fly homologs | TC030683 |
GO terms for Tribolium
-
{{ goTerm.term }} ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}{{goTerm.showAll ? '[-]' : '[+]'}}Status: {{ goTerm.status }}
Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
Reference: {{ goTerm.referenceText }}
Quotation: {{ goTerm.quotation }}
Submitter: {{ goTerm.name }}
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 }} |
|
---|---|---|
GO ID | * {{ blurIdResult }} |
|
Evidence | {{ blurEvidenceResult }} |
|
Reference | * {{ blurReferenceResult }} |
|
Quotation | ||
Name | ||
Publish name | ||
{{ unavailableText }} |
* : mandatory fields
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.
General information | ||||
iB_06048 | iB fragment
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. |
Get FastA Get primers |
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.
Lethality 11 days after pupal injection: 40.0% (includes death as pupa, adult)
eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 dpi)adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%
head partially decreased - 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%
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.
Lethalities 11 days after larval injection: -1.0% (includes death as larva, prepupa, pupa)
Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)
- >TC030683 RA
MDEVLFRGS QKIENLQVQ LSLAAIHSK EILHQYSQQ SKTALLQAW NSSYTQQAK ASLRELWQY FVDLGERVQ TNLLEHLDP EKLYYNLVK VLWKKWTKR DFCFLCAGF ICGSIVGVV FAISIKKKE SVIRYMQAV QCTNYLGIE SATVVENAR APDVCREND VIISVKAAS IHVIDAQIC SGYGRTLRK ILQKIYNKH SKKGLPVTL GRDCAGIIS DIGSNVKRL EVGDEVWLT VPFWDVGTL SQSVIVPEF RIGRKPKNI GYEGACSLP YAGTVALNA LKEVDISQE NAQDKKVLI IGGCTPVGC VLIQILAHW SANVTTTCT KRAVPVAKA LGADDIIIF PPEDNDKSN EGVAAFLKE LELRDKFDC IIMTRNCDL KIKELDFFS QKGIVSTLP EERQSDSCG FCGETLLGT YIYLKSIIE KILGLSLND YDEGHMCYV TLDELSEMV ENGFLQTVV DKVFHPQDI EIALNHIQS DDSIGSTVI TFR
- >TC030683 RA
atggacgaa gtcctgttc cgcggctcc caaaaaatc gaaaattta caggttcaa ctcagctta gctgcaatc catagcaaa gaaatcctc caccagtat tcccagcaa agcaagact gcactttta caagcatgg aacagttct tatacacaa caagccaaa gcaagttta cgcgaatta tggcaatat ttcgtcgat ttaggcgaa agggtgcaa acaaacctt ttggagcac cttgacccc gagaaactc tactacaat ttggttaaa gtgctttgg aaaaaatgg acaaaaagg gacttttgc tttctgtgt gcaggtttt atctgtgga agcattgta ggcgtagtt tttgcaatc tctattaag aagaaagag tcagtaata cggtacatg caagcagtc cagtgtaca aattattta ggtattgag tcagctact gttgttgaa aacgctaga gcccccgat gtttgtagg gaaaacgat gttataatt agcgtaaaa gcggcctca attcacgta attgatgca caaatctgt agcggttac ggccggacg ttgcgtaaa atcctccaa aaaatatac aataagcat tcgaagaag ggattaccg gtgactttg gggcgcgat tgtgcagga attatctca gacataggc tcaaacgta aaaagacta gaagtaggg gatgaagtg tggctaaca gtcccgttc tgggacgta ggaactctg tcccaaagt gtgattgtg ccagaattc cggataggt cgtaagcca aaaaacata ggatatgag ggtgcttgt agtcttcca tatgcaggg actgtggca ttaaatgca cttaaagaa gttgacatc agccaagaa aatgcacaa gacaagaag gttttgatt atagggggg tgcaccccc gtaggctgc gttttgatc cagatttta gcccactgg agtgccaat gtcaccacc acttgtacc aaaagagca gtgccagtg gccaaagcc ctgggggct gacgatatt atcattttt ccaccggaa gataatgac aaatctaac gaaggtgtg gctgcattt ttgaaagaa ctcgaattg cgcgataaa tttgactgt atcatcatg acaagaaat tgcgatttg aaaataaag gagctcgat tttttttcg caaaagggg atcgtgtcc acgttgccg gaagaacgc caatctgat tcttgtggt ttctgtggg gagacttta ctggggact tacatttat ctaaagtca ataattgag aaaattttg gggctttcc ctgaacgat tacgatgaa ggccatatg tgttatgta accttggat gaattgtct gaaatggtc gaaaatggg tttcttcag acagttgtt gataaagtc tttcatccc caagatatc gaaattgcc ttgaatcat attcagtca gatgattcc ataggcagc actgtcatc acttttagg taa
- >TC030683 RA
aattattac agccgtaaa atttaataa ttttgccat tgataacaa atgtggcaa cagtgtcgg gctcaaaac gtcaaaatt ttatcaaaa tttccggtg aaaaaatta ttttctcga taaaaattc taatacaca tacaaattc attcgtact attccaagc ttcccttag acatactta aactgattt tttatcttt tacaaaatt agcatgaca attacataa catttaata ggttttgtt tatttttct tccacaaat catgcttta aaatggacg aagtcctgt tccgcggct cccaaaaaa tcgaaaatt tacaggttc aactcagct tagctgcaa tccatagca aagaaatcc tccaccagt attcccagc aaagcaaga ctgcacttt tacaagcat ggaacagtt cttatacac aacaagcca aagcaagtt tacgcgaat tatggcaat atttcgtcg atttaggcg aaagggtgc aaacaaacc ttttggagc accttgacc ccgagaaac tctactaca atttggtta aagtgcttt ggaaaaaat ggacaaaaa gggactttt gctttctgt gtgcaggtt ttatctgtg gaagcattg taggcgtag tttttgcaa tctctatta agaagaaag agtcagtaa tacggtaca tgcaagcag tccagtgta caaattatt taggtattg agtcagcta ctgttgttg aaaacgcta gagcccccg atgtttgta gggaaaacg atgttataa ttagcgtaa aagcggcct caattcacg taattgatg cacaaatct gtagcggtt acggccgga cgttgcgta aaatcctcc aaaaaatat acaataagc attcgaaga agggattac cggtgactt tggggcgcg attgtgcag gaattatct cagacatag gctcaaacg taaaaagac tagaagtag gggatgaag tgtggctaa cagtcccgt tctgggacg taggaactc tgtcccaaa gtgtgattg tgccagaat tccggatag gtcgtaagc caaaaaaca taggatatg agggtgctt gtagtcttc catatgcag ggactgtgg cattaaatg cacttaaag aagttgaca tcagccaag aaaatgcac aagacaaga aggttttga ttatagggg ggtgcaccc ccgtaggct gcgttttga tccagattt tagcccact ggagtgcca atgtcacca ccacttgta ccaaaagag cagtgccag tggccaaag ccctggggg ctgacgata ttatcattt ttccaccgg aagataatg acaaatcta acgaaggtg tggctgcat ttttgaaag aactcgaat tgcgcgata aatttgact gtatcatca tgacaagaa attgcgatt tgaaaataa aggagctcg atttttttt cgcaaaagg ggatcgtgt ccacgttgc cggaagaac gccaatctg attcttgtg gtttctgtg gggagactt tactgggga cttacattt atctaaagt caataattg agaaaattt tggggcttt ccctgaacg attacgatg aaggccata tgtgttatg taaccttgg atgaattgt ctgaaatgg tcgaaaatg ggtttcttc agacagttg ttgataaag tctttcatc cccaagata tcgaaattg ccttgaatc atattcagt cagatgatt ccataggca gcactgtca tcactttta ggtaaaatt tattttaga caaactgga gattgttta gtacaaagt aattgtaat aaagtggta ataactgtc gtaaaacaa attttagta agtatggca tacattatg aattaacat ttcctacaa aactgtgcc tttttgtac tgccagtaa taatttatt taagactta ttgtttata aatggatgt atgacataa taaatcagt tgttagcaa
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.
