RetrogeneDB ID: | retro_ggor_1575 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 21:19364747..19366185(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UBE3A | ||
| Ensembl ID: | ENSGGOG00000003955 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_1575
GATTTTAAAGATGTGACTTACTTAACAGAAGAGAAGGTATATGAAATTACTGAATTATGTAGAGAAAGAGAGGATTATTC
CCCCTTAACTGTGTTATTGGAAGAGTTTTTTCTAGTGCTGAGGCATTGGTAGAGAGCTTCCGGAAAGCTAAACAACACAC
CAAGGAAGAACTGAAGTCTCTTCAAGCAAAGGATGAAGAGAAGAATGAAAATGAAAAGGCAAAAGCTGCATGTTCTGCTG
CTGCTATGGAAGAAGACTCAGAAGCATCTTCCTCAAGCACAGGTGATAGCTCACAGGGAGACAACAGTTTGCAAAAATTA
GGCCCTGATGATGTGTCTGTGGATACTGATGCCATTAGAAGGGTCTACACCAGATTGCTCTCTAATGAAAAAACTGAAAT
TGCCTTTCTCAATGCACTTGTATATTTGTCACCTAACGTGGAATGTGACTTGATGTATCACAAGGTATACTCTCAAGATC
CTAATTATCTGAATTTGTTCATTATAGTAATGGAGAACAGAAATCTCCACAGTCCTGAATATCTGGAAATGGCTTTGCCA
TTATTTTGCAAAGCAGTGAGCAAGCTACCCCTTGCAGCCCAAGGAAAACTGATCAGACTGTGGTCTAAATACAATGCAGA
CCAGATTCGGAGAATGGTGGAGACATTTCAGCAACTTACTACTTACAAAGTCATAAGCAACGAATTTAACAGTCAAAATC
TAGTGAATGATGATGATGCCATTGTTGCTGCTTCGAAGTGCTTGAAAGTGATTTACTATGCAAATGGTAGTGGGAGGGGA
AGTGGACACAAATCACAATGAGGAAGATGATGAAGAGCCCATCCCTGAGTCCAGTGAGCTGACACTTCAGGAGCTTTTGG
AAGAAGAGAGAAGAAACAAGAAAGGTCCTTGAGTGGACCCCCTGGAAAATGAACTTGGTGTTAAAACCCTGGATTGTCAA
AAAGCTCTTATCCCTTTTGAAGAGTTTATTAATGAACCACTGAAAGAGGTTCTAGAAATGCATAAAGATTATACTGTTTT
CAAAGTAGAAACAGAACAAATTCTCTTTTATGACATACCCCTTTTTAGTGTATGCTGTCACAAAGAATTTGGGATTATAT
TATGACAATAAGATTCCCATGTACAGTGAACGAAGAATCACTGTTCTCTACAGCTTAGTTCAAGGACAGCAGTTGAATCC
ATATTTGAGACTCATTGTTAGATGTGACTATATCATAGATGATGCACTTGTCCGGCTAGAGATGATCACTATGGAAAATC
CTGCAGACTTGAAGCAGTTCTATGTGGAATTTGAAGGAGAACAAGGTGAGGGAGGTGTTTCCAAATAATTTTTTCAGCTG
GTTGTGGAGGAAATCTTCAATCCAGATATTGGTGTGTTCACGTACGATGAACTTACAAAATTGTTTTGACTTAATCCA
ORF - retro_ggor_1575 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.65 % |
| Parental protein coverage: | 56.76 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | DFKDVTYLTEEKVYEILELCREREDYSPLIR-VIGRVFSSAEALVQSFRKVKQHTKEELKSLQAKDEDKD |
| DFKDVTYLTEEKVYEI.ELCREREDYSPL...VIGRVFSSAEALV.SFRK.KQHTKEELKSLQAKDE.K. | |
| Retrocopy | DFKDVTYLTEEKVYEITELCREREDYSPLTV<VIGRVFSSAEALVESFRKAKQHTKEELKSLQAKDEEKN |
| Parental | EDEKEKAACSAAAMEEDSEASSSRIGDSSQGDNNLQKLGPDDVSVDIDAIRRVYTRLLSNEKIETAFLNA |
| E.EK.KAACSAAAMEEDSEASSS..GDSSQGDN.LQKLGPDDVSVD.DAIRRVYTRLLSNEK.E.AFLNA | |
| Retrocopy | ENEKAKAACSAAAMEEDSEASSSSTGDSSQGDNSLQKLGPDDVSVDTDAIRRVYTRLLSNEKTEIAFLNA |
| Parental | LVYLSPNVECDLTYHNVYSRDPNYLNLFIIVMENRNLHSPEYLEMALPLFCKAMSKLPLAAQGKLIRLWS |
| LVYLSPNVECDL.YH.VYS.DPNYLNLFIIVMENRNLHSPEYLEMALPLFCKA.SKLPLAAQGKLIRLWS | |
| Retrocopy | LVYLSPNVECDLMYHKVYSQDPNYLNLFIIVMENRNLHSPEYLEMALPLFCKAVSKLPLAAQGKLIRLWS |
| Parental | KYNADQIRRMMETFQQLITYKVISNEFNSRNLVNDDDAIVAASKCLKMVYYAN-VVGGEVDTNHNEEDDE |
| KYNADQIRRM.ETFQQL.TYKVISNEFNS.NLVNDDDAIVAASKCLK..YYAN.VVGGEVDTNHNEEDDE | |
| Retrocopy | KYNADQIRRMVETFQQLTTYKVISNEFNSQNLVNDDDAIVAASKCLKVIYYAN>VVGGEVDTNHNEEDDE |
| Parental | EPIPESSELTLQELLGEERRNKKGPRVDPLETELGVKTLDCRKPLIPFEEFINEPLNEVLEMDKDYTFFK |
| EPIPESSELTLQELL.EERRNKKGP.VDPLE.ELGVKTLDC.K.LIPFEEFINEPL.EVLEM.KDYT.FK | |
| Retrocopy | EPIPESSELTLQELLEEERRNKKGP*VDPLENELGVKTLDCQKALIPFEEFINEPLKEVLEMHKDYTVFK |
| Parental | VETENKFSFMTCP-FILNAVTKNLGLYYDNRIRMYSERRITVLYSLVQGQQLNPYLRLKVRRDHIIDDAL |
| VETE....F...P.F...AVTKNLGLYYDN.I.MYSERRITVLYSLVQGQQLNPYLRL.VR.D.IIDDAL | |
| Retrocopy | VETE-QILFYDIP>FLVYAVTKNLGLYYDNKIPMYSERRITVLYSLVQGQQLNPYLRLIVRCDYIIDDAL |
| Parental | VRLEMIAMENPADLKKQLYVEFEGEQGVDEGGVSKEFFQLVVEEIFNPDIGMFTYDESTKLFWFNP |
| VRLEMI.MENPADL.KQ.YVEFEGEQG..EGGVSK.FFQLVVEEIFNPDIG.FTYDE.TKLF..NP | |
| Retrocopy | VRLEMITMENPADL-KQFYVEFEGEQG--EGGVSK*FFQLVVEEIFNPDIGVFTYDELTKLF*LNP |
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 | 54 .81 RPM |
| SRP007412_cerebellum | 0 .04 RPM | 39 .87 RPM |
| SRP007412_heart | 0 .00 RPM | 12 .88 RPM |
| SRP007412_kidney | 0 .00 RPM | 51 .85 RPM |
| SRP007412_liver | 0 .00 RPM | 43 .95 RPM |
| SRP007412_testis | 0 .21 RPM | 120 .07 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_1575 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_1575 has 3 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_2523 |
| Pan troglodytes | retro_ptro_1468 |
| Pongo abelii | retro_pabe_1855 |
Parental genes homology:
Parental genes homology involve 5 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000003764 | 1 retrocopy | |
| Homo sapiens | ENSG00000114062 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000003955 | 1 retrocopy |
retro_ggor_1575 ,
|
| Pongo abelii | ENSPPYG00000006272 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000006829 | 1 retrocopy |