RetrogeneDB ID: | retro_ocun_853 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 15:105942541..105942847(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BCAS4 | ||
| Ensembl ID: | ENSOCUG00000014694 | ||
| Aliases: | None | ||
| Description: | breast carcinoma amplified sequence 4 [Source:HGNC Symbol;Acc:14367] |
Retrocopy-Parental alignment summary:
>retro_ocun_853
GCCAAGGAGATGGAAGAGACCATAGAGGTGACACTCCTGGGCTGGAGTTCTGTAGCCTGGTTGACACAATCAGGAGTGAC
AATTCTCAGACCCTGAAGGAAAATATACCACCTCTTAAGGTGATAATGACAGAAGTGCATGGTATCTATGCCAGGGTGAG
ACCAGTTGGAGGCATTTGTGAAGATGGTGGGGCACCACGTCACCTTCCTAGAGGCCCACATGCTTTAGGCTGAGCAGTAC
CTAGAGGTCTTCCTATAGGCCCTGTGGAAGTTTCTGGGCACTGTAGACTTCCCATGCTTCAAAAAT
ORF - retro_ocun_853 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.86 % |
| Parental protein coverage: | 62.8 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | AKEVEDTVESMLL-GLEEFCSLADMIRSDTSQILEENIPLLKAKVTEMRGIYAKV-DQLEAFVKMVGHHV |
| AKE.E.T.E..LL.GLE.FCSL.D.IRSD.SQ.L.ENIP.LK...TE..GIYA.V.DQLEAFVKMVGHHV | |
| Retrocopy | AKEMEETIEVTLL<GLE-FCSLVDTIRSDNSQTLKENIPPLKVIMTEVHGIYARV>DQLEAFVKMVGHHV |
| Parental | AFLEAHVLQAERDHGAFPQALRRWLGAAGLPSFRN |
| .FLEAH.L.AE.....F..AL...LG....P.F.N | |
| Retrocopy | TFLEAHML*AEQYLEVFL*ALWKFLGTVDFPCFKN |
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 | 9 .82 RPM |
| SRP017611_kidney | 0 .00 RPM | 4 .97 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_853 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_853 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_853 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 | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000012127 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000014694 | 1 retrocopy |
retro_ocun_853 ,
|