RetrogeneDB ID: | retro_ocun_511 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 12:73159897..73162458(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZZZ3 | ||
| Ensembl ID: | ENSOCUG00000002167 | ||
| Aliases: | None | ||
| Description: | zinc finger, ZZ-type containing 3 [Source:HGNC Symbol;Acc:24523] |
Retrocopy-Parental alignment summary:
>retro_ocun_511
TCACCAAAGAAGAGACCAGAGCCTGTGCAAATTCAGAAAGGAAACAACAATGGAAGAACCACTGATTTAAAACAGCAAAG
TGCTCGGGAGTCATGGGTAAGCCCTAGGAAAAGAGGACTGTCTTCTTCAGAAAAGGATAACTTAGAAAGGCAGGCTGTAG
AAAATTGTGAGAGAAAGCAAACAGAACCTGTTTCACCAGTTTTAAAAAGAATTAAGCATTGTCTTAGATCTGAAGCACCA
AACAGTTCAGAGGAAGATTCACCTATAAAATCAGACAAGGAGTCAGTAGAACAGAGGAGTACAGTAGTGGACAATGATGC
AGATTTTCAAGGGACGAAACGAGCTTCTCTATGTCTTATACTGGATGATTGTGAGAAAAGGGAAATTAAAAAGGTGAATC
TCAGTGAGCAAGGGCCGCTTAATTCTGCAATAGTTGAAGAAATCACAGGCTATTTGACTGTCAATGGTGTTGATGACAGT
GATTCAGCTGTTATAAACTGTGATGACTGTCAGCCTGATGGGAACACTAAGCAAAATAGCACTGGTTCCTATGTGTTGCA
GGAAAAATCAGTAACTGAAAATGGGGATTCCGAAACCCAAACTTCAATGTTCCTTGGTAGTAGGAAGGAGGACAGTTACG
TAGACCATAACGTGCCTTGCACAAATTCAGAAGTGCAGGTCAAGTTGGAGGACCACAAAATAGTAACTGCCTGCCTGCCT
GTGGAACATGTTAATCAGCTGACTACTGAGCCAGCTACAGGCCCTGTTTCTGAAATTCAGTCATCTTTAAGGGATTCTGA
GGAAGAAGTAGATGTGGTGGGAGATAGCAATGCCTCAAAAGAGCAGTGTAACGAAAACACCAATAACGTCTTGGACACAG
CTCTTGAAAGTACACCAGTCTCTGGAGAATCAGAACCATCTTCTGTTCTAGACTGTGTTTCAGCTCAAATGATGTCTTTA
TCAGAACCTCAAGAACATCGCTATACCTTGAGAACTTCACCACGAAGGGCGGTACCCAGAGGTAGTCCCACTAAAAACAG
TTCTCCTTGCAGAGAAAATGGACAATTTGAGGAGAATAATCTTAGTCCCACTGAAACAAATCCAACTGTTAGTGATAATG
AAGTGAGTCTCTCACAAATCCTGATGAAATTTCTGAAAATGAAAAAGATAAATGTTGTGACTCTCAAAATTACGGAAGTG
ATGGACTAAGTAAGCCATCCTCAGAAGCAAGACTCAATATTGGACATTTGCCATCTGCCAAAGAGAGTGCCAATCAGCAC
ATTACAGAAGAGGAAGATGATGATCCTGATGTTTATTACTTTGAATCAGATCATGTGGCTCTGAAACACAACAAAGATTA
TCAGAGACTGTTACAGACGATTGCTGTACTCGAGGCTCAGCGTTCTCAAGCAGTCCAAGACCTTGAAAGTTTAGGCAAAC
ACCAGAGAGAAGCTCTAAAAAATCCCATTGGATTTGTGGAAAAACTCCAGAAGAAGGCTGATATAGGGCTTCCATATCCA
CAGAGAGTTGTTCAGTTGCCTGAAATTGTATGGGATCAATATACCAATAGCCTTGGAAACTTTGAAAGGGAATTTAAAAA
TCGTAAAAGACATACTAGGAGAGTTAAACTAGTTTTTGATAAAGTAGGTTTACCCGCTAGACCAAAAAGTCCTTTAGATC
CTAAGAAGGATGGAGAGTCTCTTTCATACTCTGTGTTGCCTTTGAGTGATGGTCCGGAAGGCTCACACAGTCGTCCTCAG
ATGATAAGAGGCTGCCTTTGTGATGATACCAAACCAGAAACATTTAACCAACTGTGGACTGTTGAAGAACAGAAAAAACT
TGAACAGCTACTCCTGAAATACCCTCCTGAAGAAGTAGAATCTCGACGCTGGCAGAAGATAGCAGATGAACTGGGCAATA
GGACGGCAAAACAGGTTGCGAGCTGAGTACAGAAGTATTTCATAAAGTTAACTAAAGCTGGCATTCCAGTCCCAGGCAGA
ACACCTAACTTATATATATACTCCAAAAAGTCTTCGTCAAGCAGAAGGCAGCACCCCCTTAATAAGCATCTCTTCAAACC
TTCCATGTTCATGACTTCTCATGAACCACCAGTGTATATGGATGAAGATGATGACCGATCCTGTTTTCACAGCCATATGA
ACACTGCTATTGAAGAGGCATCCGATGAAGAAAGTATTCCTATTATGTATAGGAATTTACCTGAATATAAAGAACTACTA
CAGTTTAAAAAGTTAAAGAAGCAGAAACTTCAGCAAATGCAGGCTGAAAGTGGATTTGTGCAGCATGTTGGCTTCAAGTG
TGATAACTGTGGCATAGAACCTATCCAGGGTGTTCGGTGGCACTGCCAGGGTTGTCCTCCAGAAATGTCTTTGGATTTCT
GTGATTCTTGTTCTGACTGCCTACATGAAACAGAAATCCACAAGGAAGATCAGCAATTAGAACCTATTTATAGGTCAGAG
ACATTCTTAGACAGAGACTACTGTGTGTCCCAGGGCACCAGTTATAATTACCTGGACCCCAACTACTTTCCAGCAAACAG
A
ORF - retro_ocun_511 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.71 % |
| Parental protein coverage: | 93.95 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SPKKRPEPVQIQKGNNNGRTTDLKQQSARESWVSPRKRGLSSSEKDNLERQAVENCERKQTEPVSPVLKR |
| SPKKRPEPVQIQKGNNNGRTTDLKQQSARESWVSPRKRGLSSSEKDNLERQAVENCERKQTEPVSPVLKR | |
| Retrocopy | SPKKRPEPVQIQKGNNNGRTTDLKQQSARESWVSPRKRGLSSSEKDNLERQAVENCERKQTEPVSPVLKR |
| Parental | IKRCLRSEAPNSSEEDSPIKSDKESVEQRSTVVDNDADFQGTKRACRCLILDDCEKREIKKVNLSEQGPL |
| IK.CLRSEAPNSSEEDSPIKSDKESVEQRSTVVDNDADFQGTKRA..CLILDDCEKREIKKVNLSEQGPL | |
| Retrocopy | IKHCLRSEAPNSSEEDSPIKSDKESVEQRSTVVDNDADFQGTKRASLCLILDDCEKREIKKVNLSEQGPL |
| Parental | NSAIVEEITGYLTVNGVDDSDSAVINCDDCQPDGNTKQNSTGSYVLQEKSVTENGDSETQTSMFLDSRKE |
| NSAIVEEITGYLTVNGVDDSDSAVINCDDCQPDGNTKQNSTGSYVLQEKSVTENGDSETQTSMFL.SRKE | |
| Retrocopy | NSAIVEEITGYLTVNGVDDSDSAVINCDDCQPDGNTKQNSTGSYVLQEKSVTENGDSETQTSMFLGSRKE |
| Parental | DSYVDHNVPCTNSEVQVKLEDHKIVTACLPVEHVNQLTTEPATGPVSEIQSSLRDSEEEVDVVGDSNASK |
| DSYVDHNVPCTNSEVQVKLEDHKIVTACLPVEHVNQLTTEPATGPVSEIQSSLRDSEEEVDVVGDSNASK | |
| Retrocopy | DSYVDHNVPCTNSEVQVKLEDHKIVTACLPVEHVNQLTTEPATGPVSEIQSSLRDSEEEVDVVGDSNASK |
| Parental | EQCNENTNNVLDTALESTPVSGESEPSSVLDCVSAQMMSLSEPQEHRYTLRTSPRRAVPRGSPTKNSSPC |
| EQCNENTNNVLDTALESTPVSGESEPSSVLDCVSAQMMSLSEPQEHRYTLRTSPRRAVPRGSPTKNSSPC | |
| Retrocopy | EQCNENTNNVLDTALESTPVSGESEPSSVLDCVSAQMMSLSEPQEHRYTLRTSPRRAVPRGSPTKNSSPC |
| Parental | RENGQFEENNLSPTETNPTVSDNV-SESLTNPDEISENEKDKCCDSQNYGSDGLSKPSSEARLNIGHLPS |
| RENGQFEENNLSPTETNPTVSDN..SESLTNPDEISENEKDKCCDSQNYGSDGLSKPSSEARLNIGHLPS | |
| Retrocopy | RENGQFEENNLSPTETNPTVSDNE<SESLTNPDEISENEKDKCCDSQNYGSDGLSKPSSEARLNIGHLPS |
| Parental | AKESANQHITEEEDDDPDVYYFESDHVALKHNKDYQRLLQTIAVLEAQRSQAVQDLESLGKHQREALKNP |
| AKESANQHITEEEDDDPDVYYFESDHVALKHNKDYQRLLQTIAVLEAQRSQAVQDLESLGKHQREALKNP | |
| Retrocopy | AKESANQHITEEEDDDPDVYYFESDHVALKHNKDYQRLLQTIAVLEAQRSQAVQDLESLGKHQREALKNP |
| Parental | IGFVEKLQKKADIGLPYPQRVVQLPEIVWDQYTNSLGNFEREFKNRKRHTRRVKLVFDKVGLPARPKSPL |
| IGFVEKLQKKADIGLPYPQRVVQLPEIVWDQYTNSLGNFEREFKNRKRHTRRVKLVFDKVGLPARPKSPL | |
| Retrocopy | IGFVEKLQKKADIGLPYPQRVVQLPEIVWDQYTNSLGNFEREFKNRKRHTRRVKLVFDKVGLPARPKSPL |
| Parental | DPKKDGESLSYSVLPLSDGPEGSHSRPQMIRGRLCDDTKPETFNQLWTVEEQKKLEQLLLKYPPEEVESR |
| DPKKDGESLSYSVLPLSDGPEGSHSRPQMIRG.LCDDTKPETFNQLWTVEEQKKLEQLLLKYPPEEVESR | |
| Retrocopy | DPKKDGESLSYSVLPLSDGPEGSHSRPQMIRGCLCDDTKPETFNQLWTVEEQKKLEQLLLKYPPEEVESR |
| Parental | RWQKIADELGNRTAKQVASRVQKYFIKLTKAGIPVPGRTPNLYIYSKKSSSSRRQHPLNKHLFKPSTFMT |
| RWQKIADELGNRTAKQVAS.VQKYFIKLTKAGIPVPGRTPNLYIYSKKSSSSRRQHPLNKHLFKPS.FMT | |
| Retrocopy | RWQKIADELGNRTAKQVAS*VQKYFIKLTKAGIPVPGRTPNLYIYSKKSSSSRRQHPLNKHLFKPSMFMT |
| Parental | SHEPPVYMDEDDDRSCFHSHMNTAIEEASDEESIPIMYRNLPEYKELLQFKKLKKQKLQQMQAESGFVQH |
| SHEPPVYMDEDDDRSCFHSHMNTAIEEASDEESIPIMYRNLPEYKELLQFKKLKKQKLQQMQAESGFVQH | |
| Retrocopy | SHEPPVYMDEDDDRSCFHSHMNTAIEEASDEESIPIMYRNLPEYKELLQFKKLKKQKLQQMQAESGFVQH |
| Parental | VGFKCDNCGIEPIQGVRWHCQDCPPEMSLDFCDSCSDCLHETEIHKEDHQLEPIYRSETFLDRDYCVSQG |
| VGFKCDNCGIEPIQGVRWHCQ.CPPEMSLDFCDSCSDCLHETEIHKED.QLEPIYRSETFLDRDYCVSQG | |
| Retrocopy | VGFKCDNCGIEPIQGVRWHCQGCPPEMSLDFCDSCSDCLHETEIHKEDQQLEPIYRSETFLDRDYCVSQG |
| Parental | TSYNYLDPNYFPANR |
| TSYNYLDPNYFPANR | |
| Retrocopy | TSYNYLDPNYFPANR |
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 .66 RPM | 12 .64 RPM |
| SRP017611_kidney | 0 .41 RPM | 18 .35 RPM |
| SRP017611_liver | 0 .85 RPM | 7 .86 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_511 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_511 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_511 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000039068 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000002167 | 1 retrocopy |
retro_ocun_511 ,
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