RetrogeneDB ID: | retro_etel_1113 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_213482:2500..3196(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSETEG00000004925 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CORO1A | ||
| Ensembl ID: | ENSETEG00000018964 | ||
| Aliases: | None | ||
| Description: | coronin, actin binding protein, 1A [Source:HGNC Symbol;Acc:2252] |
Retrocopy-Parental alignment summary:
>retro_etel_1113
GACCTCATCTACAACGTGTGCTGGAACCACAACGGTAGCCTCTTCTACTCTGCCTGCAAGGACAAGAGCGTGCGCATCAT
CGACCCCCGCTGGGGCACCCTGGTGGCGGAGCGGGAGAAGGCCCACGAGGGCGCCAGGCCCATGCGGGCCGTCTTCCTAG
CCGATGGCAAGGTGCTCACCACAGGATTCAGCCGCATGAGTGAGCGGCAACTGGCACTCTGGGACCCTGACAACCTGGAG
GAGCCCATGGCTCTGCAGGAGCTGGATTCCAGCAACGGTACCCTGCTGCCCTTCTACGACCCGGACACCAGCGTGGTCTA
TGTCTGTGGCAAGGGTGACTCCAGCATCTGGTACTTTGAGATCACTAACGAGGCCCCCTACATCCACTTCCTGAACACCT
TTACCAGCAAAGAGCCGCAGAGGGGCATGGGCAGCATGCCCAAGAGGGGCTTGAAGGTCAGCAAGTGTGAGATTGCCCGG
TTCTATAAGCTTCATGAGCGCAAGTGTGAGCCCATTGTCATGACTGTGCCAAGAAAGTCGGACTTTTTCCAGGATGACCT
GTACCCTGACACAGCAGGGCCCGAGGCAGCCCTGGAAGCAGAGGAGTGGGTGAGCGGCCGGGATGCTGACCCCACCCTTA
TCTCCCTGCGGGAGGCTTACGTGCCCAGCAAGCAGCGAGACCTGAAGGTCAGCCGG
ORF - retro_etel_1113 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.24 % |
| Parental protein coverage: | 54.01 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DTIYSVDWSRDGGLICTSCRDKRVRVIEPRKGTVVAEKDRPHEGTRPVHAVFVSDGKILTTGFSRMSERQ |
| D.IY.V.W...G.L....C.DK.VR.I.PR.GT.VAE....HEG.RP..AVF..DGK.LTTGFSRMSERQ | |
| Retrocopy | DLIYNVCWNHNGSLFYSACKDKSVRIIDPRWGTLVAEREKAHEGARPMRAVFLADGKVLTTGFSRMSERQ |
| Parental | VALWDTKHLSEPLSLQELDTINGRR-PFFELD-NIVYHCG-GDSSIRYFEITSEAPYLHYLCMFSSKESQ |
| .ALWD...L.EP..LQELD..NG...PF...D...VY.CG.GDSSI.YFEIT.EAPY.H.L..F.SKE.Q | |
| Retrocopy | LALWDPDNLEEPMALQELDSSNGTLLPFYDPDTSVVYVCGKGDSSIWYFEITNEAPYIHFLNTFTSKEPQ |
| Parental | RGMGYMPKRGLEVNKCEIARFYKLHERKCEPIAMTVPRKSDLFQEDLYPPTAGPDPALTAEEWFGGRDAG |
| RGMG.MPKRGL.V.KCEIARFYKLHERKCEPI.MTVPRKSD.FQ.DLYP.TAGP..AL.AEEW..GRDA. | |
| Retrocopy | RGMGSMPKRGLKVSKCEIARFYKLHERKCEPIVMTVPRKSDFFQDDLYPDTAGPEAALEAEEWVSGRDAD |
| Parental | PLLISLKDGYVPSKSRELRVNR |
| P.LISL...YVPSK.R.L.V.R | |
| Retrocopy | PTLISLREAYVPSKQRDLKVSR |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_1113 was not experimentally validated.
Retrocopy orthology:
Echinops telfairi 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 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000018964 | 2 retrocopies |
retro_etel_1113 , retro_etel_604,
|