RetrogeneDB ID: | retro_btau_1409 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 5:17207298..17208346(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000020784 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PTGR2 | ||
| Ensembl ID: | ENSBTAG00000003747 | ||
| Aliases: | PTGR2, ZADH1 | ||
| Description: | Prostaglandin reductase 2 [Source:UniProtKB/Swiss-Prot;Acc:Q32L99] |
Retrocopy-Parental alignment summary:
>retro_btau_1409
ATGATTGTATAAAGAGTGGTATTGAATTCCAGACCTGGAAAAAATGGTCATCCGGTGGCAGAAAATTTCCAAGTAGAAGA
AGTAAACTTACCAGATTGTGTCAATGAAAGACAAGTACAAGTCAGAACTCTTTATCTTTCCATGGATCCTTACATGCGTT
GTAGAATGAATGAAGACACTGGCAGTGACTATATAACACCTTGGCAGCTGTCTCAGGTGGTTGATGCTGGAGGTGTTGGG
ATTATAGAAGAAAGAAAACACAAATTTTACAAAAGGCGATTTTGTGACTTCCTTCTATTGGCCCTGGCAAACCACGGTTA
TTCTGGATGGAAATATCCTTGAAAAGGTAGACCCACAACTTGTGGATGGACACCTTTCATACTTTCTTGAAGCTATAGGG
ATGCCTGGTTTGACTTACTTGATTGGGGTACAGGAAAAAAGTCATATAACTGCTGGATCTAATCAAACAATGGTTGTTAG
TGGGGCTGCTGGTGCTTGTGGATCCTTGGCTGGGCAGATTGGCCGTTTGCTGGGCTGTTCCAAAGTCGTGGGAATTTGTG
GAACACCTGAGAAGTGCCTCTTTTTGACCTCAGAATTGGGCTTCAATGCTGCAATTAATTATAAAGAGGGGAATGTTGCA
GAACAACTCCATAAATTATGCCCAGCTGGAGTGGATGTTTACTTGAACAATGTTGGCGGTGACATCAGTGATACAGTGAT
AAGTCAGATGAATCAGAACAGCCACATCATCCTCTGTGGTCAAATTTCTCAGTACAACAAAGATGTGCCTTATCCTCCAC
TACACCCTGCTATAGAAGCAATCCAGAAAGAAAGAAACATCACAAGAGAAAGATTTCTGGTGTTAAATTATAAGGATAAA
TTTGAGTTTGGTATTCTCCAACTGAGCCAATGGTTTAAAGAAGGAAAGCTAAAGATCAAAGAGACTAGAATAAATGGATT
GGAAAACATGGGAGCTGCATTCCAGTCCATGATGACAGGAGGTAACATTGGAAAGCAGATAGTTTGCATTTCAGGAGATA
CCTCTTTG
ORF - retro_btau_1409 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.03 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MIVQRVVLNSRPGKNGHPVAENFRVEEVNLPDCVNEGQVQVRTLYLSVDPYMRCRMNEDTGSDYITPWQL |
| MIV.RVVLNSRPGKNGHPVAENF.VEEVNLPDCVNE.QVQVRTLYLS.DPYMRCRMNEDTGSDYITPWQL | |
| Retrocopy | MIV*RVVLNSRPGKNGHPVAENFQVEEVNLPDCVNERQVQVRTLYLSMDPYMRCRMNEDTGSDYITPWQL |
| Parental | SQVVDGGGVGIIEESKHTNFMK-GDFVTSFYWPWQTKVILDGNILEKVDPQLVDGHLSYFLGAIGMPGLT |
| SQVVD.GGVGIIEE.KH..F.K.GDFVTSFYWPWQT.VILDGNILEKVDPQLVDGHLSYFL.AIGMPGLT | |
| Retrocopy | SQVVDAGGVGIIEERKH-KFYK>GDFVTSFYWPWQTTVILDGNILEKVDPQLVDGHLSYFLEAIGMPGLT |
| Parental | SLIGVQEKGHITAGSNQTMVVSGAAGACGSLAGQIGRLLGCSRVVGICGTPEKCLFLTSELGFDAAINYK |
| .LIGVQEK.HITAGSNQTMVVSGAAGACGSLAGQIGRLLGCS.VVGICGTPEKCLFLTSELGF.AAINYK | |
| Retrocopy | YLIGVQEKSHITAGSNQTMVVSGAAGACGSLAGQIGRLLGCSKVVGICGTPEKCLFLTSELGFNAAINYK |
| Parental | EGNVAEQLHKLCPAGVDVYFDNVGGDISDTVISQMNQNSHIILCGQISQYNKDVPYPPPLPPAIEAIQKE |
| EGNVAEQLHKLCPAGVDVY..NVGGDISDTVISQMNQNSHIILCGQISQYNKDVPY.PPL.PAIEAIQKE | |
| Retrocopy | EGNVAEQLHKLCPAGVDVYLNNVGGDISDTVISQMNQNSHIILCGQISQYNKDVPY-PPLHPAIEAIQKE |
| Parental | RNITRERFLVLNYKDKFEFGILQLSQWFKEGKLKIKETMINGLENMGAAFQSMMTGGNIGKQIVCISGDT |
| RNITRERFLVLNYKDKFEFGILQLSQWFKEGKLKIKET.INGLENMGAAFQSMMTGGNIGKQIVCISGDT | |
| Retrocopy | RNITRERFLVLNYKDKFEFGILQLSQWFKEGKLKIKETRINGLENMGAAFQSMMTGGNIGKQIVCISGDT |
| Parental | SL |
| SL | |
| Retrocopy | SL |
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 |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 82 .41 RPM |
| ERP005899_muscle | 0 .11 RPM | 14 .78 RPM |
| SRP017611_brain | 0 .05 RPM | 16 .90 RPM |
| SRP017611_kidney | 0 .00 RPM | 73 .85 RPM |
| SRP017611_liver | 0 .00 RPM | 60 .10 RPM |
| SRP030211_testis | 0 .07 RPM | 19 .70 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1409 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1409 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1409 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000003747 | 1 retrocopy |
retro_btau_1409 ,
|
| Echinops telfairi | ENSETEG00000005782 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000014524 | 1 retrocopy |