RetrogeneDB ID: | retro_ggor_2351 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 6:70950500..70951131(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSGGOG00000022678 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CCDC112 | ||
| Ensembl ID: | ENSGGOG00000001120 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_2351
AGTCATCTCTACAACAACAACAACAAAACTTCAGAATTTGGCAGTATGCTGAAAGAATTGGAAAATAAACTGATTATCAG
CAGGAAAATAGAGCAAAAACCCAATAACAGTTGTTCAAAATATATAACAATGTAAAGTGACTTTAGCATCAGTTGTAAAG
TGTGACACCTACACCTGATTTTATTGCAAAGCTCAGAGAAATGAACGTAAGCAATTAAAAGTACAGTAAACATTTTTAAG
AAAGAACAGAGGTTGATTACATGAAAAGCTTAATAAAGACAAGAAAATAGCCAAAAATTAGTTGAATACTGTATCAAGGA
AAATTGACATATGGGCTTTTGGTCACTAGAAACATGGAGAACTTTCAGAAGAATGTTAAGCAAAGTTCCTGTAGACAGAA
TACAACAAAGTAGTCTTCCAGGAGAAATGGTAGATTTTGCAAAATTCCTTCAGTAAACAGTAGGATGTCAAGGGTGCTGG
ATGATTGTGATCACCAGAACTTTGTAAAAATGAGAAACAAGCATAAAAAGAAGACAAGATATATAGGGGAAGTTTTGCAA
CACCATCCTGGAAGAGCACAGGATAAAGTGCAACAGTATGAAAGATACATTAAAAATTTCTGACTCTAGAA
ORF - retro_ggor_2351 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 56.22 % |
| Parental protein coverage: | 69.08 % |
| Number of stop codons detected: | 6 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | SHFYNQKSDFRIEHSMLEELENKLI-HSRE-RAKIQQQLAKIHNNVKKLQHQLKDVKPTPDFVEKLREMM |
| SH.YN.........SML.ELENKLI....E.RAK.Q.QL.KI.NNVK.L.HQL..V.PTPDF..KLREM. | |
| Retrocopy | SHLYNNNNKTSEFGSMLKELENKLI<YQQENRAKTQ*QLFKIYNNVK*L*HQL*SVTPTPDFIAKLREMN |
| Parental | EE-IENAINTFKEEQRLI-YEELIKEEKTTNNELSAISRKIDTWALGN-SETEKAFRAISSKVPVDKVTP |
| ...I....N.FK.EQRLI..E.L.K..K...N.L...SRKID.WA.G...ET...FR...SKVPVD.... | |
| Retrocopy | VS>IKSTVNIFKKEQRLI>HEKLNKDKKIAKN*LNTVSRKIDIWAFGH<LETWRTFRRMLSKVPVDRIQQ |
| Parental | STLPEEVLDFEKFLQQTGGRQGAW-DDYDHQNFVKVRNKHKGKPPFMEEVLEHLPGKTQDEVQQHEKWYQ |
| S.LP.E..DF.KFLQ.T.G.QG.W.DD.DHQNFVK.RNKHK.K.....EVL.H.PG..QD.VQQ.E.... | |
| Retrocopy | SSLPGEMVDFAKFLQ*TVGCQGCW<DDCDHQNFVKMRNKHKKKTRYIGEVLQHHPGRAQDKVQQYERYIK |
| Parental | -KFLALE |
| .KFL.LE | |
| Retrocopy | <KFLTLE |
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 | 2 .01 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 1 .62 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .09 RPM |
| SRP007412_kidney | 0 .12 RPM | 1 .02 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .63 RPM |
| SRP007412_testis | 0 .00 RPM | 12 .54 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_2351 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_2351 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gorilla gorilla | ENSGGOG00000001120 | 1 retrocopy |
retro_ggor_2351 ,
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