RetrogeneDB ID: | retro_ocun_1926 | ||
Retrocopylocation | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | X:48464946..48465525(-) | ||
| Located in intron of: | ENSOCUG00000015594 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | FOXH1 | ||
| Ensembl ID: | ENSOCUG00000023626 | ||
| Aliases: | None | ||
| Description: | forkhead box H1 [Source:HGNC Symbol;Acc:3814] |
Retrocopy-Parental alignment summary:
>retro_ocun_1926
ATGGGACCCTGCAGGGACTCCCAGGCAGAGTCGCCCTCCGAGTGCCCCAAGAGGAGGAAGAAGAGGTACCTGTGGCATGA
CAAGCCCCCCTACACCTACTTGGCCATGATCGCCTTGGTTATCCAGGCTGCACCCGCTCGCCGGCCGAAGCTGGCCCAGA
TCATCCACCAAGTGCAGGCCGTGTTCCCCTTCTTCAGGGACAACTACGAGGGCTGGAAGGACTCCATCCACCATAACCTT
TCCTCCAACCCGTGCTTCTGTAAGGTGCCCAAGGACCCTGCAAAGCCCCAGGCCAAGGGCAACTTCTGGGCAGTCAATGT
GAGCCTGATCCCGGCCAACGTGTTGCGGCTGCAGAACATGGCCCTGTGCCGGTGCTGGCAGAACAGGGGTGCACACGGAA
CCTTTACCAAGGACCTGGGCCCCTATGTGCTTCACGGCTGGCCCTACCGGCCGCCCAGCCCACCGCCACCAGCCAGGGAA
GGCTTCAGCATCAAGCCCCTGCTGGGGAACCCCGAGGAGGGGCTGCCCTGGCCGCAGCAGCCCAGAAGGGCTGGACAGGG
CAGCCTGACTCCTGAGGGG
ATGGGACCCTGCAGGGACTCCCAGGCAGAGTCGCCCTCCGAGTGCCCCAAGAGGAGGAAGAAGAGGTACCTGTGGCATGA
CAAGCCCCCCTACACCTACTTGGCCATGATCGCCTTGGTTATCCAGGCTGCACCCGCTCGCCGGCCGAAGCTGGCCCAGA
TCATCCACCAAGTGCAGGCCGTGTTCCCCTTCTTCAGGGACAACTACGAGGGCTGGAAGGACTCCATCCACCATAACCTT
TCCTCCAACCCGTGCTTCTGTAAGGTGCCCAAGGACCCTGCAAAGCCCCAGGCCAAGGGCAACTTCTGGGCAGTCAATGT
GAGCCTGATCCCGGCCAACGTGTTGCGGCTGCAGAACATGGCCCTGTGCCGGTGCTGGCAGAACAGGGGTGCACACGGAA
CCTTTACCAAGGACCTGGGCCCCTATGTGCTTCACGGCTGGCCCTACCGGCCGCCCAGCCCACCGCCACCAGCCAGGGAA
GGCTTCAGCATCAAGCCCCTGCTGGGGAACCCCGAGGAGGGGCTGCCCTGGCCGCAGCAGCCCAGAAGGGCTGGACAGGG
CAGCCTGACTCCTGAGGGG
ORF - retro_ocun_1926 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 86.01 % |
| Parental protein coverage: | 53.46 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MGPCRDSQAESPSERPKRRKKRYLRHDKPPYTYLAMIALVIQAAPARRLKLAQIIHQVQAVFPFFRDDYE |
| MGPCRDSQAESPSE.PKRRKKRYL.HDKPPYTYLAMIALVIQAAPARR.KLAQIIHQVQAVFPFFRD.YE | |
| Retrocopy | MGPCRDSQAESPSECPKRRKKRYLWHDKPPYTYLAMIALVIQAAPARRPKLAQIIHQVQAVFPFFRDNYE |
| Parental | GWKDSIRHNLSSNPCFRKVPKDPAKPQAKGNFWAVDVSLIPADALRLQNTALCRRWQNRGAHRAFAKDLG |
| GWKDSI.HNLSSNPCF.KVPKDPAKPQAKGNFWAV.VSLIPA..LRLQN.ALCR.WQNRGAH..F.KDLG | |
| Retrocopy | GWKDSIHHNLSSNPCFCKVPKDPAKPQAKGNFWAVNVSLIPANVLRLQNMALCRCWQNRGAHGTFTKDLG |
| Parental | PYVLHGRPYRPPSPPPPASEGFSIKSLLGNPGEGPFWLQHPKRVWQGSSTPAG |
| PYVLHG.PYRPPSPPPPA.EGFSIK.LLGNP.EG..W.Q.P.R..QGS.TP.G | |
| Retrocopy | PYVLHGWPYRPPSPPPPAREGFSIKPLLGNPEEGLPWPQQPRRAGQGSLTPEG |
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 .00 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .10 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .08 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1926 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1926 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_1926 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 | ENSOCUG00000023626 | 1 retrocopy |
retro_ocun_1926 ,
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