RetrogeneDB ID: | retro_mmul_1926 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 5:175497865..175499111(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CHN2 | ||
| Ensembl ID: | ENSMMUG00000008329 | ||
| Aliases: | None | ||
| Description: | beta-chimaerin [Source:RefSeq peptide;Acc:NP_001248506] |
Retrocopy-Parental alignment summary:
>retro_mmul_1926
GAAAACAGCCCGAAGTATCATGGAAGAGAGTTTCACGGCATGATCTCCGGAGAAGCAGCTGACCAGCTCTTGAGTGTGGC
TGAGGGAGATACATCATGGGGAGAGGCAGCAACAGCCAGGGTTCTACACTTTGGCTTTCAGATTGGGAAGTCAAGCAAGA
AACTTGAGGCTCTAGTGCAATGGAAATCACTTTGCAGGGGAAAAACACTGTGTGTCCACCCACAGTCTGGTAACTGATGG
CTTGATTACTCTCTATATTGAAACAAAGCAGCAGAATACATTGCCAAGGTGATGATAAACCCAGTTTATGAACACATAGG
ATGCACAACCTTAAACAGAGTGTCTGCTGGCAAAAAATATATGCCAGTCCTGAAAGAGACATGTGGTGAGATTCTACAGG
CCAGGATGAGGTGTTGGAGAAAAGACTGACATCACTTGTTAGAAGAGCAACTCTGAAAGAAAACGAGCAAATTCCAAAAT
ATGAGAAGGTTCACAATTTCAAGGTCCATGGATCGAGAGGCCCATGCTAGCGTAAATACTGTGACATCTTCATGTATGGT
CTCATTGCTCAGGGAGTGAACCATGTGGATTGGTTTCAGTGTTCACAAGCAGTGACCCCACATGGTCCCAAATGACTGGA
AAGCAGGCTTGAGGCATGCCAGCGTGTCCAGCTGTGACCTTACAGTGCTTGTCAAAAGCACACACCTTGGCTAAGCGGCC
AAGGGTGGTGGACATGTGCAACAGGGAGATTGAGTTTGAAAGTCCCAATTCTGAAGGGCTATACCATGTATCAGGATTTA
GTGACTTAACTGATGTCAAGACGGCTTTTGACAGAGGTGGTGAGAAAGCAGCTATTTCTGTGAACACATACAAAGACATC
AACATTATCACTGGAACTCAGAAACCGCACTTCAGGGATTTGCCAATTTCACTAATTACGCATGATATCTACCCTAAATT
TATAGAATCTGCCAAAACTATGGATCCTAGTGAGTAACTGGAAACCCTTCATGAAGCATTGAAACTACTGGCACCTGCTC
GCTGTGAAACCCTCTGATCCCTGATGGCGCATCTAAACAGAGTGACACTCCATGAAAAGGAAAATCTTGTAAATGCGGAG
AGCCATGGAATTGTCTTTGGCCCATCCCTTCTGAGACCTCCAGAATGAAATGCCATGGCTGCATTGAACAATATACAATA
TCAGAGACTGGTGGTGGAGCTGCTTATCAAAAACGGAGACATTTTA
ORF - retro_mmul_1926 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.36 % |
| Parental protein coverage: | 99.52 % |
| Number of stop codons detected: | 7 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | ENRPKYYGREFHGIISREQADELLGGVEG-AYILR-ESQRQPGCYTLALRFGNQTLNYRLFHDGKHFVGE |
| EN.PKY.GREFHG.IS.E.AD.LL...EG..YI...E.Q.QPG.YTLA.R.G.Q..N.RL...G.HF.GE | |
| Retrocopy | ENSPKYHGREFHGMISGEAADQLLSVAEG<RYIMG<ERQQQPGFYTLAFRLGSQARNLRL*CNGNHFAGE |
| Parental | KRFESIHDLVTDGLITLYIETK-AAEYISKMTTNPIYEHIGYATLLREKVSR-KLSKSKNEPRKTNVTHE |
| K...S.H.LVTDGLITLYIETK.AAEYI.K...NP.YEHIG..TL.R......K...S.........T.. | |
| Retrocopy | KHCVSTHSLVTDGLITLYIETK<AAEYIAKVMINPVYEHIGCTTLNRVSAGK<KIYASPERDMW*DSTGQ |
| Parental | EHTAVDKISSLVRRAALTHNDNHFNYEKTHNFKVHTFRGPHWCEYCANFMWGLIAQGVRCSDCGLNVHKQ |
| .........SLVRRA.L..N.....YEK.HNFKVH..RGP....YC..FM.GLIAQGV...D........ | |
| Retrocopy | DEVLEKRLTSLVRRATLKENEQIPKYEKVHNFKVHGSRGPC*RKYCDIFMYGLIAQGVNHVD-WFQCSQA |
| Parental | CSKHVPNDCQPDLKRIKKVY-CCDLTTLVKAHN-TQRPMVVDICIREIEARGLKSEGLYRVSGFTEHIED |
| ...H.P......L.....V.....L..L.KAH....RP.VVD.C.REIE.....SEGLY.VSGF.....D | |
| Retrocopy | VTPHGPK*LESRLEACQRVQ<AVTLQCLSKAHTLAKRPRVVDMCNREIEFESPNSEGLYHVSGFSD-LTD |
| Parental | VKMAFDRDGEKADISANVYPDINIITGALKLYFRDLPIPVITYDTYSKFIDAAKISNADERLEAVHEVLM |
| VK.AFDR.GEKA.IS.N.Y.DINIITG..K..FRDLPI..IT.D.Y.KFI..AK.....E.LE..HE.L. | |
| Retrocopy | VKTAFDRGGEKAAISVNTYKDINIITGTQKPHFRDLPISLITHDIYPKFIESAKTMDPSE*LETLHEALK |
| Parental | LLPPAHYETLRYLMIHLKKVTMNEKDNFMNAENLGIVFGPTLMRPPEDSTLTTLHDMRYQKLIVQILIEN |
| LL.PA..ETL..LM.HL..VT..EK.N..NAE..GIVFGP.L.RPPE......L....YQ.L.V..LI.N | |
| Retrocopy | LLAPARCETL*SLMAHLNRVTLHEKENLVNAESHGIVFGPSLLRPPE*NAMAALNNIQYQRLVVELLIKN |
| Parental | EDVL |
| .D.L | |
| Retrocopy | GDIL |
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 | 55 .35 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 54 .34 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 296 .72 RPM |
| SRP007412_heart | 0 .00 RPM | 2 .47 RPM |
| SRP007412_kidney | 0 .00 RPM | 19 .01 RPM |
| SRP007412_liver | 0 .00 RPM | 46 .08 RPM |
| SRP007412_testis | 0 .00 RPM | 38 .90 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1926 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1926 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1926 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000003023 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000008329 | 1 retrocopy |
retro_mmul_1926 ,
|
| Oryctolagus cuniculus | ENSOCUG00000009401 | 1 retrocopy | |
| Sus scrofa | ENSSSCG00000016687 | 1 retrocopy |