RetrogeneDB ID: | retro_drer_13 | ||
Retrocopy location | Organism: | Zebrafish (Danio rerio) | |
| Coordinates: | 5:52714657..52715944(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDARG00000035198 | |
| Aliases: | gcnt4a, c2gnt3, gcnt4, wu:fc31c11 | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GCNT4 (3 of 3) | ||
| Ensembl ID: | ENSDARG00000044755 | ||
| Aliases: | si:dkeyp-87d8.8, im:7142583 | ||
| Description: | glucosaminyl (N-acetyl) transferase 4, core 2 [Source:HGNC Symbol;Acc:17973] |
Retrocopy-Parental alignment summary:
>retro_drer_13
ATGAGAAGATGTGCTGTCTTACACCGGTTAAGATGCAAGTTCTATGTGTTTGTCGTGTCACTGTTTGTCGTGGTGAAGCT
GGTGTACTTAAAGATTTCAATGGACAACAGTATCTACATCGAGCCCTATGGAGTTACACGTAGATCTCTCAAACCTCAGC
CACTGGATGGCATTAACTGCACAGCCATTTATGACCTGGAACCAGTGGAAATTGGCAAGTCGCTGGAGATGAGGCGCAAA
AAAATTGTGGAAGTTGATGATGGGAGAATTGCTTCGTTCACTGCGGATTGCAAAAGCTACATCGAACAAAGGCGCTACAA
TGAAGTCTTGGTCACTGATGAGGAATGTAACTTTCCAATCGCATACTCTTTGGTGGTGCACAAGAACAGCGCAATGGTGG
AAAGGATACTTCGAGCCATCTATGCACCTCAGAATATTTACTGCATTCATTATGACCAAAAATCCACAAAGGATTTTATT
GCAGCGATGAAGAACTTGGAGAGTTGTTTTCCAAATGTCTTCATCGCCTCTAAAATCGAATCCGTCCAGTATGCGCACAT
TACCAGACTTAAAGCAGATCTCAATTGCCTTTCAGACTTACTGAGTTCAGAGGTCAAATGGAAATATGTCATCAATCTGT
GTGGTCAAGACTTTCCACTGAAGTCTAATTATGAGCTGGTGACTGAGCTCCGGAAACTAAACGGCGCAAACATGCTCGAA
ACAAGCAGGCCCAGCAAAGTAAAAAAGCAACGCTTTCAGTTTAGATACCAGTTGAAAGATGTATCGTATGAATACCAGAA
GATGCCTGTTAAAACCTCCATTGCTAAAGACCCACCGCCACATAACATTGAGATGTTTGTTGGAAGTGCTTACTTTGTCT
TGTCACGGGATTTTGTGACATATGTTATGAATAATCAACTGGCGAAGGATTTTCTTCAGTGGTCAGTCGACACATATTCT
CCCGATGAGCACTTTTGGGCATCAATGGCAAGAGTTCCCGGAGTTCCTGGGGAGTTAGCAAGATCTGAACCTGATGTGTC
AGACCTGAAGAGCAGGACACGCTTGGTTAAATGGAACTATCTCGAAGAGCGATTGTATCCAAAGTGCACTGGTACACACA
GACGTAGTGTCTGCATCTATGGTGCAGCGGAGCTCCGGTGGCTTCTGGAGGACGGCCATTGGTTTGCAAACAAGTTTGAT
CCCAAAGTTGACCCTGTCATTATTAAATGTCTTGAGGAGAAACTTGAGGAGAAGCAACTTCAACAATGCTTGAGGAGAGT
GTCTTAA
ORF - retro_drer_13 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.57 % |
| Parental protein coverage: | 97.89 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | ILYKRQCLFSKVFIEVFIVDKIVEIKISPSHCVVLVKYGIIKKMLMMQQLTVKYGINCTKIYEMEPVEVG |
| .L....C.F.......F.V.K.V..KIS.........YG.....L..Q.L....GINCT.IY..EPVE.G | |
| Retrocopy | VLHRLRCKFYVFVVSLFVVVKLVYLKISMDNSIYIEPYGVTRRSLKPQPLD---GINCTAIYDLEPVEIG |
| Parental | KSLVIRKQKIYKGLTDAAIANATIDCEWFVSSQGYNDIQVTESEREFPLAYSLVVHQDAALVERLLRAVY |
| KSL..R..KI.....D..IA..T.DC........YN...VT..E..FP.AYSLVVH...A.VER.LRA.Y | |
| Retrocopy | KSLEMRRKKIVE-VDDGRIASFTADCKSYIEQRRYNEVLVTDEECNFPIAYSLVVHKNSAMVERILRAIY |
| Parental | VPHNIYCIHYDRKSSTDFMLAMNGLARCIPNVFIASKLERVQYAGISRLRADLNCLSDLLDSEVKWKYVI |
| .P.NIYCIHYD.KS..DF..AM..L..C.PNVFIASK.E.VQYA.I.RL.ADLNCLSDLL.SEVKWKYVI | |
| Retrocopy | APQNIYCIHYDQKSTKDFIAAMKNLESCFPNVFIASKIESVQYAHITRLKADLNCLSDLLSSEVKWKYVI |
| Parental | NLCGQDFPLRTNAELVSDLKGLKGRNMVESKWPGG-KKIRWSVHHLLKNNDSEYYDFPVSTPEEKPPPPH |
| NLCGQDFPL..N.ELV..L..L.G.NM.E...P...KK.R......LK....EY...PV.T...K.PPPH | |
| Retrocopy | NLCGQDFPLKSNYELVTELRKLNGANMLETSRPSKVKKQRFQFRYQLKDVSYEYQKMPVKTSIAKDPPPH |
| Parental | NIEMFVGSAYFTLSREFVYFVHWSSLAKDFLAWSEDTFSPDEHFWATLVRVPGVPGEVPRSDPEISELIS |
| NIEMFVGSAYF.LSR.FV..V....LAKDFL.WS.DT.SPDEHFWA...RVPGVPGE..RS.P..S.L.S | |
| Retrocopy | NIEMFVGSAYFVLSRDFVTYVMNNQLAKDFLQWSVDTYSPDEHFWASMARVPGVPGELARSEPDVSDLKS |
| Parental | KTHLVKWSYLENDLYPECTGVSVRSVCIYGAAELRWLLNYGHWFANKVDPTVDPVLIECLEEKLEEKR |
| .T.LVKW.YLE..LYP.CTG...RSVCIYGAAELRWLL..GHWFANK.DP.VDPV.I.CLEEKLEEK. | |
| Retrocopy | RTRLVKWNYLEERLYPKCTGTHRRSVCIYGAAELRWLLEDGHWFANKFDPKVDPVIIKCLEEKLEEKQ |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Danio rerio was not studied using RNA-Seq expression data.
Danio rerio was not studied using ChIP-Seq data.
1 EST(s) were mapped to retro_drer_13 retrocopy
| EST ID | Start | End | Identity | Match | Mis-match | Score |
|---|---|---|---|---|---|---|
| EB790084 | 52714710 | 52715264 | 99.1 | 548 | 5 | 542 |
Danio rerio was not studied using FANTOM5 data.
retro_drer_13 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_drer_13 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Danio rerio | ENSDARG00000044755 | 1 retrocopy |
retro_drer_13 ,
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