RetrogeneDB ID: | retro_mmul_1561 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 20:46922218..46922985(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KLF8 | ||
| Ensembl ID: | ENSMMUG00000014678 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_1561
GATATGGCTCAACTCATAAACAACTTGGAGGTGCAACTTAATTCAGAAGGTGGCTCAATGCAGGTATTCAGGTCCATCAC
TGGCCCTGTTCAGAGCAGAGATCCCCCTGAGATAGAAGCATAAATAATATGACTTCTCCACCACTTCTGGATGCCAACCC
CATGGAGAACCCAGCACTGTTTAATGACATCAGGTTTGAGACCCCAGAAGAACTTTTGGCGAGTGATTTCAGCCTGTCCC
CAGTGGAACCAGTTGACTTCTCCTCTCCCAAGCCCAAGGCTCCTCTCCAGCCTGTTAGCATGCTGCAAGCTCCAGAACAT
CCTCCCAAGCCACAGTCTGCTCCCCAGACCCTTGTGGTGTTCACTTCAACATCAGCAAACATTCCTACTATTCTGACCAC
AGGCTCTGTCCTGACTCCCTCTCAGGGCACTGGTGGCTAGCAGATCTTACATGTTGTTCACAGCATCCCCTCAGTCTGTC
TTCCAAGTAAGATGGGTGACCTGAATGCCATCCCAGTGGTGGTGCAGTCTCTGCCCATGGTGTATACTACTTTGCCTGCA
AATGAGGGCCCTGCAACCATTACAGTCCCACTCATTGGAGGAGATGGTACAAATGCTGGATCATGATGTGAATGTTGACC
CCACTCCATGTCTCCACTGGAGATTCCAAGTGACAATGAGGAGAGTGTAATTAAAAGTGGATCCTCATTCTCACAGAGTC
TGCAGGGACCACAGCAAGAACCAGCAGCAATGGTCTAAATGCAGGGA
ORF - retro_mmul_1561 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.99 % |
| Parental protein coverage: | 72.42 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | DMDQLINNLEVQLNSEGGSMQVFKQVTSSVRNRDPSEIEY-RSNMTSPTLLDANPMENPALFNDIKIEPP |
| DM.QLINNLEVQLNSEGGSMQVF...T..V..RDP.EIE....NMTSP.LLDANPMENPALFNDI..E.P | |
| Retrocopy | DMAQLINNLEVQLNSEGGSMQVFRSITGPVQSRDPPEIEA<INNMTSPPLLDANPMENPALFNDIRFETP |
| Parental | EELLASDFSLPQVEPVDLSFHKPKAPLQPASMLQAPVRPPKPQSAPQTLVVSTSTSDMSTSANIPTVLTP |
| EELLASDFSL..VEPVD.S..KPKAPLQP.SM.......P.....PQ.....T.....STSANIPT.LT. | |
| Retrocopy | EELLASDFSLSPVEPVDFSSPKPKAPLQPVSM----LQAPEHPPKPQS-APQTLVVFTSTSANIPTILTT |
| Parental | GSVLTSSQSTGGQQILHVIHTIPSVSLPNKMGGLKTIPVVVQSLPMVYTALPADGGPAAITVPLIGGDGK |
| GSVLT.SQ.TGG.QILHV.H.IPSV.LP.KMG.L..IPVVVQSLPMVYT.LPA..GPA.ITVPLIGGDG. | |
| Retrocopy | GSVLTPSQGTGG*QILHVVHSIPSVCLPSKMGDLNAIPVVVQSLPMVYTTLPANEGPATITVPLIGGDGT |
| Parental | NAGS-VKVDPTSMSPLEIPSDSEESTIESGSSALQSLQGLQQEPAAMAQMQG |
| NAGS.....P.SMSPLEIPSD.EES.I.SGSS..QSLQG.QQEPAAM..MQG | |
| Retrocopy | NAGS*CEC*PHSMSPLEIPSDNEESVIKSGSSFSQSLQGPQQEPAAMV*MQG |
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 | 1 .34 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 2 .62 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 2 .78 RPM |
| SRP007412_heart | 0 .00 RPM | 4 .65 RPM |
| SRP007412_kidney | 0 .00 RPM | 10 .68 RPM |
| SRP007412_liver | 0 .12 RPM | 2 .30 RPM |
| SRP007412_testis | 0 .04 RPM | 0 .98 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1561 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1561 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1561 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 | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000003363 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000014678 | 1 retrocopy |
retro_mmul_1561 ,
|
| Pan troglodytes | ENSPTRG00000021957 | 1 retrocopy |