RetrogeneDB ID: | retro_pabe_1611 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 18_random:1984333..1985178(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KIAA0895L | ||
| Ensembl ID: | ENSPPYG00000007443 | ||
| Aliases: | None | ||
| Description: | KIAA0895-like [Source:HGNC Symbol;Acc:34408] |
Retrocopy-Parental alignment summary:
>retro_pabe_1611
ATGGTGCTGGACTCGGGGGCTCAGGCGTATGATCAGGTGTCCACCAGCCCACCTACCAGTCTCCTGTCCCTGCGTCATAG
GCTGAAGCCCTCAGACCGAGATGGGCCACCGCTGTATCCCTGGTCTCAGTCCCTGGCCTTGCCCCTGGCTCTAGCAGTCC
CCCCAGCACTGCAGCCCCAGCCTAAGCAGCAGCCTTTCTCACAGATGCACCTGGGCCACCGTGGCCACATGCGTGGCAGT
GAGAGCACCTACTCTGTAAACAGTACTGGCCGGCGGGGGCGTGGCACCCTGGGACGGCCTCCACCTGGACGGCGACGGAA
CCCAGGTGGGGGCACCCTGCGGCCTACAGCCTCCCTGCCTCACATTGCTAAGACTCAAAGCGATGCAGACCACAGTGCCA
GCAAGAGCCCGTGCATGTTGGTGGCCCTGCGGCCAACCAACGTGGACCGTGAGGGAGACAAGTTCTTTCAGTCGCATTAC
ACCTACAATCCACAGTTCGAGTACCAGGAGCCCATGCCCACGGCTGTGCTGAAGTACTGAGAGGCCTCTGGACAGTTCAT
CCATCAGGCAGTTGGCATCATTGAGGCTGTTCTGGAGAAGTTTGGAAACCATGAACACTTTGAGGCTGCCACCGGGAGGC
GGCTGCTCACCAAGTGCCAGATATGGTCCATTGTGCGCAAATACATGCAGAAGGAGGGCTGCGTCGAAGAGGTTGTGGTG
CAGCTGAGTGAAGACCTGCTGTCCCAGGCAGTGATGATGGTGGAGAACAGCCGGCCCACATTGGCGGTCAACCTGACCAG
AGCCCGCCAGTACTGGCTGGAGGGATGCTGTGGCATGAAATAGGT
ORF - retro_pabe_1611 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.2 % |
| Parental protein coverage: | 67.54 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MVLDSGAQAYDQAPPSPPTSPPSLRHRLKPSDRDGPPLYPWSQSLALPLALAVPPALQPQPEQQPFSQMH |
| MVLDSGAQAYDQ...SPPTS..SLRHRLKPSDRDGPPLYPWSQSLALPLALAVPPALQPQP.QQPFSQMH | |
| Retrocopy | MVLDSGAQAYDQVSTSPPTSLLSLRHRLKPSDRDGPPLYPWSQSLALPLALAVPPALQPQPKQQPFSQMH |
| Parental | LGHRGHMRRSESTYSVNSTGRRGRGTLGRPPPGRGRNPGGGTLRPAASLPHIAKTQRDAGHIASKSPCML |
| LGHRGHMR.SESTYSVNSTGRRGRGTLGRPPPGR.RNPGGGTLRP.ASLPHIAKTQ.DA.H.ASKSPCML | |
| Retrocopy | LGHRGHMRGSESTYSVNSTGRRGRGTLGRPPPGRRRNPGGGTLRPTASLPHIAKTQSDADHSASKSPCML |
| Parental | VALRPTNMDRERDKFFQSHYTYNPQFEYQEPMPTAVLEKYCEASGQFIHQAVGIIEAVLEKFGTYEHFEA |
| VALRPTN.DRE.DKFFQSHYTYNPQFEYQEPMPTAVL.KY.EASGQFIHQAVGIIEAVLEKFG..EHFEA | |
| Retrocopy | VALRPTNVDREGDKFFQSHYTYNPQFEYQEPMPTAVL-KY*EASGQFIHQAVGIIEAVLEKFGNHEHFEA |
| Parental | ATGGQLLTKCQIWSIVRKYMQKEGCVGEVVVQLSEDLLSQAVMMVENSRPTLAINLTGARQYWLE-GMLR |
| ATG..LLTKCQIWSIVRKYMQKEGCV.EVVVQLSEDLLSQAVMMVENSRPTLA.NLT.ARQYWLE.GML. | |
| Retrocopy | ATGRRLLTKCQIWSIVRKYMQKEGCVEEVVVQLSEDLLSQAVMMVENSRPTLAVNLTRARQYWLE<GMLW |
| Parental | HEIG |
| HEIG | |
| Retrocopy | HEIG |
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 | 54 .57 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 101 .54 RPM |
| SRP007412_heart | 0 .00 RPM | 4 .06 RPM |
| SRP007412_kidney | 0 .00 RPM | 12 .83 RPM |
| SRP007412_liver | 0 .00 RPM | 3 .58 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1611 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1611 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_1611 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000196123 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000007443 | 2 retrocopies |
retro_pabe_1582, retro_pabe_1611 ,
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