RetrogeneDB ID: | retro_mmul_659 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 1099213996158:4..850(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | IVD | ||
| Ensembl ID: | ENSMMUG00000014462 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_659
GTCGCACCGCTGGCCGCCGAGGCCGATGCCAGCAACCAGTTCCCGCTGGCCCTGTGGCCGAAGCTGGGCGAACAGGGCCT
GCTCGGCCTCACCGTGGAAGAAGAATACGGCGGCACCGGCATGGGTTACCTGGCCCATGTGGTGGCGATGGAAGAAATCT
CGCGTGCCTCCGGCGGCATCGGCCTGTCCTATGGCGCGCACTCCAACCTGTGCGTGAACCAGCTGCGCAAGAACGGCAAC
GAAGAACAGAAGCAGCGCTTCCTGCCCGGCCTGCGCAACGGCAGCCTGGTCGGCGCGCTGGCGATGAGCGAGCCGGGTGC
CGGTTCGGACGTGGTGTCGATGAAGCTGCGCGCCGACAAGCGCGGTGACCGCTACGTGCTCAACGGCAACAAGATGTGGA
TCACCAACGGCCCGGACGCCGACGTGCTGGTGGTCTATGCCAAGACCGACATGGAAGCGGGTGCCAAGGGCATCACCGCG
TTCCTGGTCGAGAAGGGCATGAAGGGCTTCTCCACCGCGCAGAAGCTGGACAAGCTGGGCATGCGCTCCTCGCCCACCTG
CGAGCTGGTGTTCCAGGACTGCGAGATTCCCGAAGAAAACGTGCTGGGCCAGGTCGGTGGTGGCGTGCGCGTGTTGATGT
CCGGCCTGGATTACGAGCGCGTGGTCCTTTCTGGTGGCCCGCTGGGCCTGATGGCCGCGGCCATGGACGTGGTGATGCCG
TACGTGCATGAGCGCCACCAGTTCGGCGAACCGATCGGCAGCTTCCAGCTGATCCTGGCCGAGATCGCCGACATGTACGT
GGGCCTGGGCGCGTGCCGCGCCTACGTCTATGCCGTCGCGCGCGCC
ORF - retro_mmul_659 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 64.69 % |
| Parental protein coverage: | 67.61 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LAPKAQEIDCSNEFKNLREFWKQLGNLGVLGITAPVQYGGSGLGYLEHVLVMEEISRASGAVGLSYGAHS |
| .AP.A.E.D.SN.F......W..LG..G.LG.T....YGG.G.GYL.HV..MEEISRASG..GLSYGAHS | |
| Retrocopy | VAPLAAEADASNQFP--LALWPKLGEQGLLGLTVEEEYGGTGMGYLAHVVAMEEISRASGGIGLSYGAHS |
| Parental | NLCVNQLVRNGNEAQKEKYLPKLTSGEYIGALAMSEPNSGSDVVSMKLKAEKKGDHYVLNGNKSWITNGP |
| NLCVNQL..NGNE.QK...LP.L..G...GALAMSEP..GSDVVSMKL.A.K.GD.YVLNGNK.WITNGP | |
| Retrocopy | NLCVNQLRKNGNEEQKQRFLPGLRNGSLVGALAMSEPGAGSDVVSMKLRADKRGDRYVLNGNKMWITNGP |
| Parental | DADVLIVYAKTDLAATPASRGITAFIVEKGMPGFSTSKKLDKLGMRGSDTCELIFEDCKVPAANILGHEN |
| DADVL.VYAKTD..A.....GITAF.VEKGM.GFST..KLDKLGMR.S.TCEL.F.DC..P..N.LG... | |
| Retrocopy | DADVLVVYAKTDMEA--GAKGITAFLVEKGMKGFSTAQKLDKLGMRSSPTCELVFQDCEIPEENVLGQVG |
| Parental | KGVYVLMSGLDLERLVLAGGPLGLMQAVLDHTIPYLHVREAFGQKIGHFQLMQGKMADMYTRLMACRQYV |
| .GV.VLMSGLD.ER.VL.GGPLGLM.A..D...PY.H.R..FG..IG.FQL.....ADMY..L.ACR.YV | |
| Retrocopy | GGVRVLMSGLDYERVVLSGGPLGLMAAAMDVVMPYVHERHQFGEPIGSFQLILAEIADMYVGLGACRAYV |
| Parental | YNVAKA |
| Y.VA.A | |
| Retrocopy | YAVARA |
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 | 18 .71 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 42 .68 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 27 .38 RPM |
| SRP007412_heart | 0 .00 RPM | 45 .46 RPM |
| SRP007412_kidney | 0 .00 RPM | 170 .07 RPM |
| SRP007412_liver | 0 .00 RPM | 181 .45 RPM |
| SRP007412_testis | 0 .00 RPM | 19 .79 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_659 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_659 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_659 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000014462 | 1 retrocopy |
retro_mmul_659 ,
|
| Xenopus tropicalis | ENSXETG00000016078 | 1 retrocopy |