RetrogeneDB ID: | retro_mmul_1487 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 2:179128733..179129274(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GPS2 | ||
| Ensembl ID: | ENSMMUG00000006207 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mmul_1487
TCACCAGAGGAGACGGAAGGAACAAATTCTGACGCTGCAGGAGAAGCTGTGGGCCCGGCAGAAAGAGAAGGACCAGCTTT
TTCTGCAGCTCTAGAAAGTTTCCATGAGGAAGAAAAACCGAGGCGAAAGGAGCAGAGCGACCTGACCTCTCACATCCGCT
GTGGGCCGGCAGAGCCCGATTATTCAGGCGGGGACTCGCCGCCTCCTCCGCGTGCGGGCAGCAGGCAGCGCTGGAGGGCA
CGATCGCCCGGGCATTGTCATAGCAGCTGACCCAGCCAAGCAGATTTTCAGACCCCACGTACTTGCGACCCGGAAGTCCG
TGGGCTCAGCGGCGGCTTTTGCAGGGACCCCAGAGCAGGCAGCCTGGGCGGTGCCGCTGGGACTGCTCAGCCCCCCCCAC
CTCAGTACGGACCCACATAGCTAGCCTATGGCCCTAGTCAGCAGCTCAGAGCAGTTCAGTGCTCCCTGAGGTGCATAAAT
GTCCCAGCCACAGCCTTATGATCTGCTGGGCCACTTTCAGCACACCCAAACAGGGTTCCTC
ORF - retro_mmul_1487 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.4 % |
| Parental protein coverage: | 56.27 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | SLEET-KEQILKLEEKLLALQEEKHQLFLQLKKVLHEEEKRRRKEQSDLT-TLTSAAYQQSLTVHTGTHL |
| S.EET.KEQIL.L.EKL.A.Q.EK.QLFLQL.KV.....K..R.E.S..T..LTSA...QS.....GT.. | |
| Retrocopy | SPEET>KEQILTLQEKLWARQKEKDQLFLQL*KV--SMRKKNRGERSRAT*PLTSAVGRQSPIIQAGTRR |
| Parental | L---SMQGSPGGHNRPGTLMAADRAKQMFGPQVLTTRHYV-GSAAAFAGTPEHGQFQGSPGGAYGTAQPP |
| L......GS.GGH.RPG...AAD.AKQ.F.P.VL.TR..V.G....F...P......GS.GGA.GTAQ.. | |
| Retrocopy | LLRVRAAGSAGGHDRPGIVIAADPAKQIFRPHVLATRKSV<GLSGGFCRDPR----AGSLGGAAGTAQXX |
| Parental | -PHYGPTQPAYSPSQQLRA-PSAFPTVQY-LSQPQPQPYAVHGHFQPTQTGFL |
| .P.YGPT..AY.PSQQLRA..S..P.V....SQP..QPY...GHFQ.TQTGFL | |
| Retrocopy | XPQYGPT*LAYGPSQQLRA<SSVLPEVHK<MSQP--QPYDLLGHFQHTQTGFL |
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 .11 RPM | 80 .12 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 133 .51 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 92 .79 RPM |
| SRP007412_heart | 0 .00 RPM | 60 .24 RPM |
| SRP007412_kidney | 0 .00 RPM | 75 .59 RPM |
| SRP007412_liver | 0 .00 RPM | 64 .60 RPM |
| SRP007412_testis | 0 .00 RPM | 190 .92 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1487 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1487 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1487 has 3 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_2738 |
| Pan troglodytes | retro_ptro_1852 |
| Gorilla gorilla | retro_ggor_1907 |
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000006207 | 1 retrocopy |
retro_mmul_1487 ,
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