RetrogeneDB ID: | retro_pvam_1043 | ||
Retrocopy location | Organism: | Megabat (Pteropus vampyrus) | |
| Coordinates: | scaffold_245:277308..278120(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSPVAG00000016790 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CBLL1 | ||
| Ensembl ID: | ENSPVAG00000000781 | ||
| Aliases: | None | ||
| Description: | Cbl proto-oncogene-like 1, E3 ubiquitin protein ligase [Source:HGNC Symbol;Acc:21225] |
Retrocopy-Parental alignment summary:
>retro_pvam_1043
TTTGAAGATAACAAAGAAGGACAATATGACTGTAAAGGAAGTAAACTGTTGAGAAAAAAGAAAGAAAAAAACTCCTGAAT
ATTTTGGGAAGACTTTAAGGTAAACATCATAGGTAAAAAGGATGATTCAGTTCATTTCTGTGACAAATGTGATTTGCTCG
TTAAATCTATGGGTGAATGATTCTGTGCAAGCATCCTTTTTGTTATGACTGTGCTAATTTATATGAAAAAAAAATGGAAA
TAAGATGTGTAGCATAAGGCTGTAGTATTCCTGTGCTGTGAATTGAGCATACATGAGGTTATATTTTCATGTGTAGCACT
GTCCAAGGTTGCAAGAGAACGTATTTGTCTTAGAGAGACTTACAAGCTCATATTAATCACTGTCATAAGAGAGTTGAAAA
ACTTGTTACCTGTGCTCCACTGGAAAAAGTTCATCCTTTTACTGCCTTGCCAAACACTGAAACCCCTTAAATGCAGCTGG
CCAAGGACCATAAGAGGCATATTCCACCAGAGCAGGACACCTTGATGTCACCACCTCCCATGCAGCATGAGCCATACAAG
CACTATAATCAGCCACATGAGGGTCTTTGTGCTTCTCCAGTACAATTGTCTCCACCTCCATCTCCTTCAGTCCATCGGGA
AACCATTAGTATTGCAACAAGTGAATATAGAAATTTAATAATCATCCTTATTCAGGATGACTCTAATTCTGGTGCTAAGC
AACCATCATTTCCTGCTTTAGCACCCGCTCACCATCACATCGAATATCAAATTCAACCATCGATATTGCACTATTACTCT
ATTATGCTTCCA
ORF - retro_pvam_1043 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 55.56 % |
| Parental protein coverage: | 56.01 % |
| Number of stop codons detected: | 7 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | FDYNEEERYDCKGGELFGNQRRFPGHLFW-DFQINIVGEKDDTPVHFCDKCGLPIK-IYGRMIPCKHVFC |
| F..N.E..YDCKG..L...........FW.DF..NI.G.KDD..VHFCDKC.L..K.IYG.MI.CKH.FC | |
| Retrocopy | FEDNKEGQYDCKGSKLLXXXXXXXS*IFWEDFKVNIIGKKDDS-VHFCDKCDLLVK<IYG*MILCKHPFC |
| Parental | YDCAILHEKKGDKMCP--GCSDPVQRIEQCTRGSLFMCSIVQGCKRTYLSQRDLQAHINHRHMRAGKPVT |
| YDCA.L........C...GCS.PV..IE..T.G..FMCS.VQGCKRTYLS.RDLQAHINH.H.R..K.VT | |
| Retrocopy | YDCANLYXXXXEIRCVA*GCSIPVL*IEH-T*GYIFMCSTVQGCKRTYLS*RDLQAHINHCHKRVEKLVT |
| Parental | RASLENVHPPIAPPPTEIPDRFIMPPDKHHMSHIPPKQHIMMPPPPLQHVPHEHYNQPHEDIRAPPAELS |
| .A.LE.VHP..A.P.TE.P........K.H...IPP.Q...M.PPP.QH.P..HYNQPHE...A.P..LS | |
| Retrocopy | CAPLEKVHPFTALPNTETP*MQLAKDHKRH---IPPEQDTLMSPPPMQHEPYKHYNQPHEGLCASPVQLS |
| Parental | MAPPPPRSVSQETFRISTRKHSNLITVPIQDDSNSGAREPPPPAPAPAHHHPEYQGQPVVSHPHHIMPP |
| ..PPP..SV..ET..I.T....NLI...IQDDSNSGA..P..PA.APAHHH.EYQ.QP...H...IM.P | |
| Retrocopy | --PPPSPSVHRETISIATSEYRNLIIILIQDDSNSGAKQPSFPALAPAHHHIEYQIQPSILHYYSIMLP |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Pteropus vampyrus was not studied using RNA-Seq expression data.
Pteropus vampyrus was not studied using ChIP-Seq data.
Pteropus vampyrus was not studied using EST data.
Pteropus vampyrus was not studied using FANTOM5 data.
retro_pvam_1043 was not experimentally validated.
Retrocopy orthology:
Pteropus vampyrus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000031990 | 1 retrocopy | |
| Loxodonta africana | ENSLAFG00000029522 | 1 retrocopy | |
| Pteropus vampyrus | ENSPVAG00000000781 | 1 retrocopy |
retro_pvam_1043 ,
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