RetrogeneDB ID: | retro_ocun_1940 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | X:77134624..77135844(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOCUG00000023763 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ST7L | ||
| Ensembl ID: | ENSOCUG00000000269 | ||
| Aliases: | None | ||
| Description: | suppression of tumorigenicity 7 like [Source:HGNC Symbol;Acc:18441] |
Retrocopy-Parental alignment summary:
>retro_ocun_1940
ATGTCAGAATGCAAGGTATGGAGAAACCCTCTAAACCTTTACAGAGGAGCAGAATATAGGAGATACACATGGGTGACCGG
TAAAGAGCCGCTTACATACTATGACATGAACTTGTCGGCTCAGGACCATCAGACCCTTTTCACCGGTGACACAGACATCC
TACGTCCTTCAGACACAGTTATGCAGAAGGCATGGAGGGAAAGAAATCCTCCAGCGCGAATCAAAGCAGCCTATCAAGCT
TTAGAATTAAACAATGACTGTGCCACTGCATACGTTCTACTGGCTGAGGAAGAAGCAACAACCATTGTAGATGCTGAAAG
ATTATTTAAGCAGGCACTCAAAGCAGGAGAAACAATTTATAGGCGGTCACAGCAGTGCCAGCACCAAAGTCCTCAGCATG
AAGCTCAACTGAGGAGAGATACCAGTGTACTGGTATATATTAAAAGAAGATTGGCAATGTGTGCAAGAAAGTTAGGAAGA
ATAAGAGAAGCAGTAAAAATAATGAGAGATCTGATGAAAGAATTTCCTCCTCTTACCATGTTGAACATCCATGAAAATCT
CTTAGAATCAATTTTAGAATTACAGGCCTATGCAGATGTTCAGGCAGTCCTAGCAAAGTATGATGATATAAGCCTTCCAA
AATCAGCAGCAATCTGTTATACAGCAGCACTGTTGAAGACAAGGACTGTTTCAGATAAATTCTCTCCAGAAACAGCCTCT
AGAAGAGGGTTAAGCACAGCAGAAATTAATGCTGTGGAAGCAATTCATAGAGCTGTGGAATTTAATCCTCATGTTCCAAA
ATATTTACTGAGATGAAAAGTTTGATTTTGCCTCCAGAACACATTCTGAAACGGGGTGATAGTGAAGCACTTGCCTATGC
TTTCTTTCATCTTCAGCACTGGAAGCGAATACAAGGTGCTCTTAATCTCTTACAGTGCACGTGGGAAGGCACTTTTAGAA
TGATTCCATACCCACTAGAGAAAGGACATCTATTTTACCCATATCCCAGCTGCACAGAGACTGCTGATAGAGAGCTGTTA
CCTAACTTTCATCATGTTTCTGTTTACCCAAAGAAAGAACTTCCTTTTTTCATCCATTTCACAGCGGGATTGTGTTCTTC
TACAGCAATGATAGCCCTTCTCACACACCAGTTTCCTGAAATCATGGGTATTTTTGCTAAAGCTGTAAGTATGATCTCAA
GGACTTGTGTAGAGTATTTG
ORF - retro_ocun_1940 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.55 % |
| Parental protein coverage: | 73.07 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LSECKVWRNPLNLFRGAEYRRYTWVTGKEPLTYYDMNLSAQDHQTLFTCDTDILRPSDTVMQKAWRERNP |
| .SECKVWRNPLNL.RGAEYRRYTWVTGKEPLTYYDMNLSAQDHQTLFT.DTDILRPSDTVMQKAWRERNP | |
| Retrocopy | MSECKVWRNPLNLYRGAEYRRYTWVTGKEPLTYYDMNLSAQDHQTLFTGDTDILRPSDTVMQKAWRERNP |
| Parental | PARIKAAYQALELNNDCATAYVLLAEEEATTIVDAERLFKQALKAGETIYRRSQQCQHHSPQHEAQLRRD |
| PARIKAAYQALELNNDCATAYVLLAEEEATTIVDAERLFKQALKAGETIYRRSQQCQH.SPQHEAQLRRD | |
| Retrocopy | PARIKAAYQALELNNDCATAYVLLAEEEATTIVDAERLFKQALKAGETIYRRSQQCQHQSPQHEAQLRRD |
| Parental | TNVLVYIKRRLAMCARKLGRIREAVKIMRDLMKEFPLLTMLNIHENLLESLLELQAYADVQAVLAKYDDI |
| T.VLVYIKRRLAMCARKLGRIREAVKIMRDLMKEFP.LTMLNIHENLLES.LELQAYADVQAVLAKYDDI | |
| Retrocopy | TSVLVYIKRRLAMCARKLGRIREAVKIMRDLMKEFPPLTMLNIHENLLESILELQAYADVQAVLAKYDDI |
| Parental | SLPKSAAICYTAALLKTRTVSDKFSPETASRRGLSTAEINAVEAIHRAVEFNPHVPKYLL-EMKSLILPP |
| SLPKSAAICYTAALLKTRTVSDKFSPETASRRGLSTAEINAVEAIHRAVEFNPHVPKYLL.EMKSLILPP | |
| Retrocopy | SLPKSAAICYTAALLKTRTVSDKFSPETASRRGLSTAEINAVEAIHRAVEFNPHVPKYLL<EMKSLILPP |
| Parental | EHILKRGDSEAIAYAFFHLQHWKRIEGALNLLQCTWEGTFRMIPYPLEKGHLFYPYPSCTETADRELLPN |
| EHILKRGDSEA.AYAFFHLQHWKRI.GALNLLQCTWEGTFRMIPYPLEKGHLFYPYPSCTETADRELLPN | |
| Retrocopy | EHILKRGDSEALAYAFFHLQHWKRIQGALNLLQCTWEGTFRMIPYPLEKGHLFYPYPSCTETADRELLPN |
| Parental | FHHVSVYPKKELPFFIHFTAGLCSSTAMIALLTHQFPEIMGIFAKAVSMISRTCVEYL |
| FHHVSVYPKKELPFFIHFTAGLCSSTAMIALLTHQFPEIMGIFAKAVSMISRTCVEYL | |
| Retrocopy | FHHVSVYPKKELPFFIHFTAGLCSSTAMIALLTHQFPEIMGIFAKAVSMISRTCVEYL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP017611_brain | 0 .17 RPM | 11 .15 RPM |
| SRP017611_kidney | 0 .10 RPM | 11 .96 RPM |
| SRP017611_liver | 0 .08 RPM | 4 .86 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1940 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1940 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_1940 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000000269 | 1 retrocopy |
retro_ocun_1940 ,
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