RetrogeneDB ID: | retro_ggor_2374 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 6:118966403..118966970(+) | ||
| Located in intron of: | ENSGGOG00000003828 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ENSG00000204645 | ||
| Ensembl ID: | ENSGGOG00000026107 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_2374
ATGAACAGAGACAGCACCTTTGCAAAGAGACCCAGGGATGATGCTCAGATATCAGAGAAGAGACACAAGGCCTTCAATGA
TATTGCCAGATACTTATCTAATAAAGAGTGGGGAAAGCTGAAAAACTCAGAGAAAATCACCTATGTGTATATGAAGAGAA
ACTATGAGACCATGACTAAACTAGGTCTCTAGGCCACCCTCCCAACTTTAATGTACAATAAATGGGCTGCAGAATTCCAG
GGGAACGATTCTGATATAGACTAAAACTGCAGGAATCAGGATGAATATCCTCAGATGGCTTTCGGCATGCTACAAGGGAA
CTTTCCAAAGATGATGCCCAAGAAGCCAGCAGAGGAAGGAAATGATTTGAAGGGAGTGCCAGAAGCATCTGGCTCACAAA
ACAATGGGAAACAGCTGTGTCCCCTGGGAAAAGAAAGTACCTCTGAGAAGACTAACAAGACATCTAGACCCAAGAAAAGG
GTGGAACATGTCTGGACCCACGGACTGCGAGAGAGAAAGTATCTAGTGATTTATGAAGAGATCAGAGACCCTGAGGAAGA
TGACAAA
ORF - retro_ggor_2374 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.84 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MNGDDAFARRPRDDAQISEKLRKAFDDIAKYFSKKEWEKMKSSEKIIYVYMKLNYEVMTKLGFKVTLPPF |
| MN.D..FA.RPRDDAQISEK..KAF.DIA.Y.S.KEW.K.K.SEKI.YVYMK.NYE.MTKLG...TLP.. | |
| Retrocopy | MNRDSTFAKRPRDDAQISEKRHKAFNDIARYLSNKEWGKLKNSEKITYVYMKRNYETMTKLGL*ATLPTL |
| Parental | MCSKRAADFHGNDFGNDRNHRNQVECPQMTFGRLQRIFPKIMPKKPAEEENDLKEVPEASGPQNDGKQLC |
| M..K.AA.F.GND...D.N.RNQ.E.PQM.FG.LQ..FPK.MPKKPAEE.NDLK.VPEASG.QN.GKQLC | |
| Retrocopy | MYNKWAAEFQGNDSDID*NCRNQDEYPQMAFGMLQGNFPKMMPKKPAEEGNDLKGVPEASGSQNNGKQLC |
| Parental | PPGNPSTLEKINKTSGP-KRGKHAWTHRLRERKQLVVYEEISDPEEDDE |
| P.G..ST.EK.NKTS.P.KR..H.WTH.LRERK.LV.YEEI.DPEEDD. | |
| Retrocopy | PLGKESTSEKTNKTSRPKKRVEHVWTHGLRERKYLVIYEEIRDPEEDDK |
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_prefrontal_cortex | 0 .10 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .04 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .16 RPM | 0 .00 RPM |
| SRP007412_kidney | 15 .54 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .26 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .62 RPM | 0 .31 RPM |
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_2374 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_2374 has 5 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_3512 |
| Pan troglodytes | retro_ptro_2385 |
| Pongo abelii | retro_pabe_2903 |
| Macaca mulatta | retro_mmul_1862 |
| Callithrix jacchus | retro_cjac_2373 |
Parental genes homology:
Parental genes homology involve 5 parental genes, and 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000014776 | 1 retrocopy | |
| Homo sapiens | ENSG00000204645 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000026107 | 1 retrocopy |
retro_ggor_2374 ,
|
| Nomascus leucogenys | ENSNLEG00000003504 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000015375 | 3 retrocopies |