RetrogeneDB ID: | retro_ggor_3063 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | X:133078734..133079494(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | WDR4 | ||
| Ensembl ID: | ENSGGOG00000016652 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_3063
CTGGCCACCTCTGCTGCAAACAATGATGACAACAACCTCTTCATCTATGACTGCAGTGCTGCAGACTAGTCACAAGAAAA
TAAAGGGGAGGATGGGCTGCCCTTGGTCTGGGGGAGTGGCATGATTCTGGCATCCACCTCCAAGTCTGGCGCTATTTTGC
TTTAACAGATGACCACGAGTGTCTGATTCTTTTCCATACAAAACCATGGCAATGTCTGAGTGTCAGGACCATGGCAAGGA
GGTGTATGGCCCTGACCTTACAGCCTCTGAGGAGAAGGTCTTGGTGGCCGACAAATCTGGAGATATGTACTCCTTTTTGG
TTTCAGAGCCACACAGACGCGGCAGACTTGACCTGGCACAATTGTCAATGTTGTTAGAGGTGACTGTGAGTCCTGATAAC
TGCTTCATCCTCACTGCCAACCAGGATGAGAAGATCCAGGTCAGCTAGGCCACAGCGCCTCACAGTATCGAGTCCTTCTG
CCTCGGGCACACGGAGTTTGTGAGCCGCATCTCTGTGGTGCCCACTCAGCCCGAACTGTTTCTTATCCTCCTCCAGGGAC
TGCACTCTTAGGCTCTGGGAGTACAGAAGTGGTCATCAACTGCACTGCTGTCACCTGGCCAGTCTGCAAGGGCTGATGGG
CCCCTGGGACACCAGAGGTTTGTCACATCCGGGATCACGTTCTGGTGCTAGGAGAACTGCATGATGCTTCTGTGCAACTA
TATTCCTGTAATCTACATCTTCCAGCTTGATGCTCTCAGA
ORF - retro_ggor_3063 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.46 % |
| Parental protein coverage: | 61.89 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | LATSIASSDDDSLFIYDCSAAEKKSQENKGEDA-PLDQGSGVILASTFSKSGS-YFALTDDSKRLILFRT |
| LATS.A..DD..LFIYDCSAA...SQENKGED..PL..GSG.ILAST.SKSG..YFALTDD...LILF.T | |
| Retrocopy | LATSAANNDDNNLFIYDCSAAD*-SQENKGEDGLPLVWGSGMILAST-SKSGA<YFALTDDHECLILFHT |
| Parental | KPWQCLSVRTVARRCTALTF-IASEEKVLVADKSGDVYSFSVLEPHGCGRLELGHLSMLLDVAVSADDRF |
| KPWQCLSVRT.ARRC.ALT...ASEEKVLVADKSGD.YSF.V.EPH..GRL.L..LSMLL.V.VS.D..F | |
| Retrocopy | KPWQCLSVRTMARRCMALTL<TASEEKVLVADKSGDMYSFLVSEPHRRGRLDLAQLSMLLEVTVSPDNCF |
| Parental | ILTADRDEKIRVSWAAAPHSIESFCLGHTEFVSRIFVVPTQPGL-LLSSSGDGTLRLWEYRSGRQLHCCH |
| ILTA..DEKI.VS.A.APHSIESFCLGHTEFVSRI.VVPTQP.L..LSSS.D.TLRLWEYRSG.QLHCCH | |
| Retrocopy | ILTANQDEKIQVS*ATAPHSIESFCLGHTEFVSRISVVPTQPEL>FLSSSRDCTLRLWEYRSGHQLHCCH |
| Parental | LASLQELV-DPQAPQRFAASRIAFWCQENCVALLCDGTPVVYIFQLDARR |
| LASLQ.L...P...QRF..S.I.FWC.ENC..LLC...PV.YIFQLDA.R | |
| Retrocopy | LASLQGLM<GPLGHQRFVTSGITFWC*ENCMMLLCNYIPVIYIFQLDALR |
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 .00 RPM | 5 .99 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 7 .17 RPM |
| SRP007412_heart | 0 .00 RPM | 1 .44 RPM |
| SRP007412_kidney | 0 .00 RPM | 2 .98 RPM |
| SRP007412_liver | 0 .00 RPM | 2 .08 RPM |
| SRP007412_testis | 0 .00 RPM | 5 .18 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_3063 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_3063 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_4905 |
| Pongo abelii | retro_pabe_3814 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000160193 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000016652 | 1 retrocopy |
retro_ggor_3063 ,
|
| Nomascus leucogenys | ENSNLEG00000014641 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000011458 | 1 retrocopy |