RetrogeneDB ID: | retro_pabe_143 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 17:48321243..48321828(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSPPYG00000008438 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KRTAP4-7 | ||
| Ensembl ID: | ENSPPYG00000008436 | ||
| Aliases: | None | ||
| Description: | keratin associated protein 4-7 [Source:HGNC Symbol;Acc:18898] |
Retrocopy-Parental alignment summary:
>retro_pabe_143
ATGGTCAACTCCTGTTGTGGCTCCGTATGCTCTGACCAAGGCTGTGGCCAAAACCTCTGCCAAGAGACCTGCTGCTGCCC
CAGCTGCTGCCAGACCACCTGCTGCAGGACCATCTGCTGTCGCCCCAGCTGCAGTGTGTCCAGCTGCTGCAAGCCCCAGT
GCTGCCAGTCTGTGTGCTGCCAGCCCACCTGCTGCCATCCCAGCTACTGCATCTCCAGCTGCTGTCGCCCCAGCTGCTGT
GTGTCCAGCTGCTGCAAGCCCCAGTGCTGCCAGTCTGTGTGCTGCCAGCCCACCTGCTGCCGCCCCAGCTGCTGCATCTC
CAGCTGCTGTCGCCCCAGCTGCTGTGTGTCCAGCTGCTGCAAGCCCCAGTGCTGCCAGTCTGTGTGCTGCCAGCCCACCT
GCTGCCGCCCCAGCTGCTGCATCTCCAGCTGCTGTCGCCCCAGCTGCTGTGAATCCAGCTGCTGCCACCCCTGCTGCTGC
CTGCGTCCAGTCTGTGGCCGAGTCTCCTGCCACACCACTTGCTATCGCCCAACCTGCGTCATTTCCACCTGCCCCCGCCC
CATGTGCTGTGCCTCCTCTTGCTGC
ORF - retro_pabe_143 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.61 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MVNSCCGSVCSDQGCGQDLCQETCCRPSCCQTTCCRTTCYRPSCCVSSCCRPQCCQSVCCQPTCCRPSCC |
| MVNSCCGSVCSDQGCGQ.LCQETCC.PSCCQTTCCRT.C.RPSC.VSSCC.PQCCQSVCCQPTCC.PS.C | |
| Retrocopy | MVNSCCGSVCSDQGCGQNLCQETCCCPSCCQTTCCRTICCRPSCSVSSCCKPQCCQSVCCQPTCCHPSYC |
| Parental | ETTCGRPRCCISSCCRPSCCVSSCCRPQCCQSVCCQPTCCRPSCCRPCCCLRPVCGRVSCHTTCYRPICV |
| ...C.RP.CC.SSCC.P.CC.S.CC.P.CC...CC...CCRPSCC...CC....C..V.C..TC.RP.C. | |
| Retrocopy | ISSCCRPSCCVSSCCKPQCCQSVCCQPTCCRPSCCISSCCRPSCCVSSCCKPQCCQSVCCQPTCCRPSCC |
| Parental | ISSCPRPLCCASSCC |
| ISSC.RP.CC.SSCC | |
| Retrocopy | ISSCCRPSCCESSCC |
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 |
|---|---|---|
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_143 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_143 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_143 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 | |
|---|---|---|---|
| Pongo abelii | ENSPPYG00000008436 | 1 retrocopy |
retro_pabe_143 ,
|
| Vicugna pacos | ENSVPAG00000003505 | 1 retrocopy |