RetrogeneDB ID: | retro_mmul_1888 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 5:61651295..61652010(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ST3GAL1 | ||
| Ensembl ID: | ENSMMUG00000012531 | ||
| Aliases: | None | ||
| Description: | CMP-N-acetylneuraminate-beta-galactosamide-alpha-2, 3-sialyltransferase 1 [Source:RefSeq peptide;Acc:NP_001248563] |
Retrocopy-Parental alignment summary:
>retro_mmul_1888
TGGCTGAGGCTCCAGCAGGAGAAGAAGCCCAATATCTTGAACAACACGATCAAGGAGTTCAGAGCGGTACCTGGGAATGT
GGACCCAATGCTGGAGAAGAGGTCGGTGGGCTGCTGGCGCTATGCTGTTGTGGGCAACTCAGGCAACCTGAGGCAATCAT
CGTATGGGCCTGAGATAGACAGTCACAATTTTGTGCTCAAGATGAACAAGGCACCTACGGCAGGGTTCGAAGCTGATGCT
GGGAGCAAAATAACCCACCTCTGGGGTACCCTGAGAGCTTCCGGGAGTTCGGGGACAATGTAAGCATGGTCCTGGTGCCC
TTCAAGACCATTGACTTGTTGTGGGGGGTGAGAGCCACCACCACGGGTGCCATTTCCCACACCTACACCCCGTTCCCTGC
AAAGATCAGAGTGAAACAAGATAAGATCCTGATCTACCACCCAGCCTTCATGAAGTATGTCTTCAATAACTGACTGCAGA
GCCACAGGTGGTACCCATCCACAGGTATCCTCTCAGTCATCTTCTCAATGCACATCTGCGATTAGGTGGACTTGTATAGC
TTCTGAGCAGACAGCAAAGGGAACTTACACTACTACTGGGAGAACAACCCGTCTGTGAGGCCTTTTTGCAAGATTGGGGT
ACACGATGCAGACTTTGAGTCTAACATGACGGCCACCTTGGCTTCATCAATAAAATCCGGATCTTCAAGGGGAGA
ORF - retro_mmul_1888 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.82 % |
| Parental protein coverage: | 70.59 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | WLRLQREKKPNNLNDTIKELFRVVPGNVDPMLEKRSVGCRRCAVVGNSGNLRESSYGPEIDRHDFVLRMN |
| WLRLQ.EKKPN.LN.TIKE.FR.VPGNVDPMLEKRSVGC.R.AVVGNSGNLR.SSYGPEID.H.FVL.MN | |
| Retrocopy | WLRLQQEKKPNILNNTIKE-FRAVPGNVDPMLEKRSVGCWRYAVVGNSGNLRQSSYGPEIDSHNFVLKMN |
| Parental | KAPTAGFEADVGTKTTH-HLVYPESFRELGDNVSMILVPFKTIDLEWVVSATTTGTISHTYVPVPAKIRV |
| KAPTAGFEAD.G.K.TH..L.YPESFRE.GDNVSM.LVPFKTIDL.W.V.ATTTG.ISHTY.P.PAKIRV | |
| Retrocopy | KAPTAGFEADAGSKITH<PLGYPESFREFGDNVSMVLVPFKTIDLLWGVRATTTGAISHTYTPFPAKIRV |
| Parental | KQDKILIYHPAFIKYVFDNWLQGHGRYPSTGILSVIFSMHVCDEVDLYGFGADSKGNWHHYWENNPSAGA |
| KQDKILIYHPAF.KYVF.N.LQ.H..YPSTGILSVIFSMH.CD.VDLY.F.ADSKGN.H.YWENNPS... | |
| Retrocopy | KQDKILIYHPAFMKYVFNN*LQSHRWYPSTGILSVIFSMHICD*VDLYSF*ADSKGNLHYYWENNPSVRP |
| Parental | FRKTGVHDADFESNVTATLAS-INKIRIFKGR |
| F.K.GVHDADFESN.TATLAS.INKIRIFKGR | |
| Retrocopy | FCKIGVHDADFESNMTATLAS<INKIRIFKGR |
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 | 9 .08 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 16 .66 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 5 .49 RPM |
| SRP007412_heart | 0 .00 RPM | 16 .25 RPM |
| SRP007412_kidney | 0 .00 RPM | 13 .15 RPM |
| SRP007412_liver | 0 .00 RPM | 21 .06 RPM |
| SRP007412_testis | 0 .08 RPM | 1 .88 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1888 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1888 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1888 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 | |
|---|---|---|---|
| Homo sapiens | ENSG00000008513 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000012531 | 1 retrocopy |
retro_mmul_1888 ,
|
| Pongo abelii | ENSPPYG00000018896 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000020606 | 1 retrocopy |