RetrogeneDB ID: | retro_mmul_2595 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | X:72273057..72273604(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | LRRFIP2 | ||
| Ensembl ID: | ENSMMUG00000022539 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_2595
ACTTCTGGTTCTGGAAGGAAAACATCAATGAAAGCCTGATTTTCTGCAGAAGATGAAGCTTTGAGTAACATGCCAAAAAG
GCAGAGGCAAGGCTGGCAGTAAAATGAGTTGCCTGGGCAAAAGCAAGAGATATACACATGAGCAAACTGGAACAATGAAA
AGAGTTGGATGAAAAATCTGACAAACAGTGTGCTAAAAATTATGCAAGGCCTTTATCTTGAAATTCTGCTCTGCAACAAA
CACCCTAGGTGGAAATTGATCCAGATAAGGAAGTGGGAACACCAGCAGCTTAATAGGTCCAGATACCTAGCTGAGTGACT
TGTCTTTGTCTAAAGTGAAAGAGAAATGTAAGAAAACCATGGTTTCCAGTGCATAGTTATACAACAAGAACAATTTAGCC
CACCAGATAGATACCCTCAAGCTTTTTATTGAAGAACAGGAGGAACAGATGATGGAATTTTATAGAGATAATGAAGAATG
ATCAAAGAAGATAGAAAGACAGAAACATATGTGTAGTGCACTGCAGCATACAATGGATAAACTTAAG
ORF - retro_mmul_2595 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.95 % |
| Parental protein coverage: | 71.21 % |
| Number of stop codons detected: | 9 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | TPGSGRKRTPVKDRFSAEDEALSNI-AREAEARLAAKRAARAEARDIRMRELERQQKELDEKSDKQYAEN |
| T.GSGRK.T..K..FSAEDEALSN..A..AEARLA.K..A.A.ARDI.M..LE.Q.KELDEKSDKQ.A.N | |
| Retrocopy | TSGSGRK-TSMKA*FSAEDEALSNM<AKKAEARLAVK*VAWAKARDIHMSKLE-Q*KELDEKSDKQCAKN |
| Parental | YTRPSSRNSA-SATTPLSGNSSRRGSGDTSSLIDPDTSLSELRESLSEVEEKYKKAMVSNAQLDNEKNNL |
| Y.RP.S.NSA.SAT..L.GN.SR.GSG.TSSLI.PDT.LS.L..SLS.V.EK.KK.MVS.A.L.N.KNNL | |
| Retrocopy | YARPLS*NSA<SATNTLGGN*SR*GSGNTSSLIGPDT*LSDL--SLSKVKEKCKKTMVSSA*LYN-KNNL |
| Parental | IYQVDTLKDVIEEQEEQMAEFYRENEEKSKELERQKHMCSVLQHKMEELK |
| ..Q.DTLK..IEEQEEQM.EFYR.NEE.SK..ERQKHMCS.LQH.M..LK | |
| Retrocopy | AHQIDTLKLFIEEQEEQMMEFYRDNEE*SKKIERQKHMCSALQHTMDKLK |
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 | 12 .77 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 7 .54 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 19 .18 RPM |
| SRP007412_heart | 0 .00 RPM | 62 .77 RPM |
| SRP007412_kidney | 0 .00 RPM | 11 .15 RPM |
| SRP007412_liver | 0 .00 RPM | 5 .94 RPM |
| SRP007412_testis | 0 .00 RPM | 49 .42 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_2595 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_2595 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_2595 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 | ENSMMUG00000003386 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000022539 | 1 retrocopy |
retro_mmul_2595 ,
|
| Ictidomys tridecemlineatus | ENSSTOG00000023775 | 1 retrocopy |