RetrogeneDB ID: | retro_mmul_1180 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 15:43190413..43191550(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SERPINH1 | ||
| Ensembl ID: | ENSMMUG00000007675 | ||
| Aliases: | None | ||
| Description: | serpin H1 precursor [Source:RefSeq peptide;Acc:NP_001248016] |
Retrocopy-Parental alignment summary:
>retro_mmul_1180
CCTAAGGCAGCCACGCTGGCCAAACGCAGCGCCGGCCCGGCCTTCAGCCTGTACCAGGCCATGGCCAAGGACCAGGCGGT
GGAGAACATCTTAGTGTCGCCCGTTGAGGTGGCCTCGTCGCTGGAGCTTGTATCGCTGGGCGGCCAGGCGACCACGGCGT
CGCAGGCCAAGGCAGTGCTGAGCACCGAGCAGCTGTGCGACGAGGAGGTGCACGCCGGCGAGGGCGAGCCGCTGCGCTCA
CTCAGCAACTCCACCGCGCGAAACGTGACTTGGAAGTTGGGCAGCCGCCTGTAGGGACCCAGCTCAGTGAGCTTCGCTGA
TGACTTCGTGCGCAGCAGCAAGCAGCTCTACAACTGCGAGCACTCCAAGATCAACTTCCACGACAAGAGCAGCGCGCTGC
AGTCCATCAACGAGTGGGCCACGCAGACCACCGACGGCAAGCTGCCTGAGGTCACCAAGGACGTGGACTGCACGGAGGGC
GCCCTACTTGTCAACGCCATGTTCTTCAAGTCACACGGGGATGAGAAATTCTACCACAAGATGGTGGACAACCGTGGCTT
CATGATGACTCGGTCCTATACCGTGGTTGTCATGATGATGCACCAGAAAGGCCTCTACAACTACTATGACAACGAGAAGG
AAAAGCTGCAAATCATGGAGATGCCCCAGACCACAAGCTCTCTAGCCTCATCACCCTCATGCCCCACCACCTGGAGCCCC
TCGAGGCCTTGAAAAGCCGCTAACCAAAGAGCAGCTGAAGATCTGGATAGGGAAGATGCAGAAGGCTGTCACCATCTCCC
TGCCCAAGGGTGTGGTGGAGGTTCCCATGACCTGCAGAAATACCTGTCTGGGCTTGGCCTAACTGAGGCCATTGACAAGA
ACAAGGCAAACTTGTCACATATGCCACGCAAGAAGGATCTGTACCTGGCCAGCGTGTTCCACGCCACCGCCTTTGAGTTG
GACACAAATGGCAACCCCTTTGACCAGGACATCTATGGGCACAAGGAGCTGCGCAGCCCCAAGCTGTTCTACTCTGACCA
CCCCTTCGTCTTCCTGGTGTGGGACACCCAGAGCGGCTCCCTGCTGTTCACTGGTCGCCCAGTCCAGCCTAAGGTTGACA
AGATGCGAGATGAGTTG
ORF - retro_mmul_1180 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.42 % |
| Parental protein coverage: | 91.15 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | PKAATLAERSAGLAFSLYQAMAKDQAVENILVSPVVVASSLGLVSLGGKATTASQAKAVLSAEQLRDEEV |
| PKAATLA.RSAG.AFSLYQAMAKDQAVENILVSPV.VASSL.LVSLGG.ATTASQAKAVLS.EQL.DEEV | |
| Retrocopy | PKAATLAKRSAGPAFSLYQAMAKDQAVENILVSPVEVASSLELVSLGGQATTASQAKAVLSTEQLCDEEV |
| Parental | HTGLGELLRSLSNSTARNVTWKLGSRLYGPSSVSFADDFVRSSKQHYNCEHSKINFRDKRSALQSINEWA |
| H.G.GE.LRSLSNSTARNVTWKLGSRL.GPSSVSFADDFVRSSKQ.YNCEHSKINF.DK.SALQSINEWA | |
| Retrocopy | HAGEGEPLRSLSNSTARNVTWKLGSRL*GPSSVSFADDFVRSSKQLYNCEHSKINFHDKSSALQSINEWA |
| Parental | AQTTDGKLPEVTKDVERTDGALLVNAMFFKPHWDEKFHHKMVDNRGFMVTRSYTVGVMMMHRTGLYNYYD |
| .QTTDGKLPEVTKDV..T.GALLVNAMFFK.H.DEKF.HKMVDNRGFM.TRSYTV.VMMMH..GLYNYYD | |
| Retrocopy | TQTTDGKLPEVTKDVDCTEGALLVNAMFFKSHGDEKFYHKMVDNRGFMMTRSYTVVVMMMHQKGLYNYYD |
| Parental | DEKEKLQIVEMPLA-HKLSSLIILMPHHVEPLER-LEKLLTKEQLKIWMGKMQKKAVAISLPKGVVEV-T |
| .EKEKLQI.EMP...HKLSSLI.LMPHH.EPLE..LEK.LTKEQLKIW.GKMQ.KAV.ISLPKGVVEV.. | |
| Retrocopy | NEKEKLQIMEMPQT<HKLSSLITLMPHHLEPLEA<LEKPLTKEQLKIWIGKMQ-KAVTISLPKGVVEV<S |
| Parental | HDLQKHLAGLGLTEAIDKNKADLSRMSGKKDLYLASVFHATAFELDTDGNPFDQDIYGREELRSPKLFYA |
| HDLQK.L.GLGLTEAIDKNKA.LS.M..KKDLYLASVFHATAFELDT.GNPFDQDIYG..ELRSPKLFY. | |
| Retrocopy | HDLQKYLSGLGLTEAIDKNKANLSHMPRKKDLYLASVFHATAFELDTNGNPFDQDIYGHKELRSPKLFYS |
| Parental | DHPFIFLVRDTQSGSLLFIGRLVRPKGDKMRDEL |
| DHPF.FLV.DTQSGSLLF.GR.V.PK.DKMRDEL | |
| Retrocopy | DHPFVFLVWDTQSGSLLFTGRPVQPKVDKMRDEL |
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 | 0 .00 RPM | 7 .62 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 13 .25 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 5 .81 RPM |
| SRP007412_heart | 0 .00 RPM | 107 .82 RPM |
| SRP007412_kidney | 0 .00 RPM | 78 .64 RPM |
| SRP007412_liver | 0 .04 RPM | 35 .90 RPM |
| SRP007412_testis | 0 .11 RPM | 8 .97 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1180 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1180 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1180 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 5 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000149257 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000007675 | 1 retrocopy |
retro_mmul_1180 ,
|
| Nomascus leucogenys | ENSNLEG00000016882 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000003691 | 2 retrocopies | |
| Pan troglodytes | ENSPTRG00000004083 | 1 retrocopy |