RetrogeneDB ID: | retro_ggor_2776 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 9:11238928..11240275(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | AKAP8 | ||
| Ensembl ID: | ENSGGOG00000013427 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_2776
GGCCCAGTCTCATAGGAGGCCACCAAGGCAAGCAAAGGTGGCCTGGTGGCCGAGGCCACTTCCATGCACATGGCCTCTTA
TGGCCCAGAGCGGGGCACCTACAATTGCAACTCCCTCACTGCCAAGATCAATCAGCTTTTGGACATGATGTCCAAGGAAG
AAGGCAGTGGGGGGAGCGGCCACGGTGGGGAGGGCATGCAGGACTGGGAGAGCTCCTTCTACTTGCAGACCTTGGAGTCC
TGTGACTCCATGGCCTGCCTGCCAGAGCACAGCCCCTACTGCCCCAGCTACAGCTACGACTACAACTTCGACCTAGGGTT
CCACCGCAATGGCAGCTTTCAGGGGCAGTACAGTGAATGTTGAGACCTGGCCCTGGAGTAGGGCTCCCTCAATGGCTTCA
TGCCGGGCGGGGCCATGGCCAGGGCCATTTCCAGGACCAAAGCAATCCCGGCACCTTCATGTGCAACAACCCCTTCAAGC
CACCCTCAGCCTCCCCTGATCCTCTATCTACGCCCTAGAAAGAGCTGAACTACGTGAGTGGATGGGGTCTGGGAAGGCCC
TCTCCCCAGCCAATGGCCTCCTTGGCTCTTCTCCCCGTCCGTGGTTCCTGACTAAGGCTTGATGGGCGTGCAGGGGGCGG
GTGGCTATGACAGCGCTGGCCTTAAGGATGTGTTCACTCGCAGGGCCAAATGCAGGATCAGGATCCACCCAGAAGGAGAG
GGTTTGACCCGTTTGGGCTAGAAAGCATGGGAAGGAAACAGAAGCAGTTCCGGAACTGTAAGGAGCCAGAGACCAAACTA
GCCTGGGTTGACAGCGAAGGAGATTTCTCAGAAAATGATAACAAAGCTGGTGATTTCCACTCAGAAGATGAAGAATTCAA
AGGTGAGGATAAATTCTGTGACTCTGGTAGGCAGAGAGAAGGACGACGAGGATGAGGAAGTGAAAAAGAGAAGGGAAAAA
TAAAGGAGGAGAGACAGGATGCAGGACTGAGCAGCCGACAGGATTCAGTTGGCCTCTTCTGTGTGCAATTTCTGTAGATT
TGAAGACGAAGAGATCCAGAAGCATCTGCAAAGCAAATTTCACAAAGAGACGCTGCAGTTTATAAGCACCAAGCTGCCCA
ACAAGACAATGGAATTCATCCGGGAATACATTATAAACAGGAATAAAGAAATTGAGAAGAAGCGTCAGGAATTGATGGAG
AAAGAAAGCACAAAACCAAAACCAGATCCTTTCAAAGAGATTGGCCAGGAGCACTTTAAGAAGATCCAGGCTGCTCACTG
CCTGGCCTGTGCCGTGCTGATCCCAGCGCAGCCACAGCTTCTCCAGCCACACCTGCACTTCGTTGAC
ORF - retro_ggor_2776 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.05 % |
| Parental protein coverage: | 65.03 % |
| Number of stop codons detected: | 8 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | GPASWEAAKANDGGLAAGAPAMHMASYGPEPCTDNSDSLIAKINQRLDMMSKEGGRGGSGGGGEGMQDRE |
| GP.S.EA.KA..GGL.A.A..MHMASYGPE..T.N..SL.AKINQ.LDMMSKE.G.GGSG.GGEGMQD.E | |
| Retrocopy | GPVS*EATKASKGGLVAEATSMHMASYGPERGTYNCNSLTAKINQLLDMMSKEEGSGGSGHGGEGMQDWE |
| Parental | SSFRFQPFETYDSRPCLPEHNPYRPSYSYDYDFDLASDRNGSFGGQYSECRDPARERGSLDGFM-RGRG- |
| SSF..Q..E..DS..CLPEH.PY.PSYSYDY.FDL...RNGSF.GQYSEC.D.A.E.GSL.GFM..GRG. | |
| Retrocopy | SSFYLQTLESCDSMACLPEHSPYCPSYSYDYNFDLGFHRNGSFQGQYSEC*DLALE*GSLNGFM<AGRGH |
| Parental | -QGRFQDRSNPGTFMRSDPFVPPAASSEPLSTPWNELNYVGGRGLG-GPSPSRPPPSLFSQSMAPDYSVM |
| .QG.FQD.SNPGTFM...PF.PP.AS..PLSTP..ELNYV.G.GLG.GP.PS..PP.LFS.S..PD...M | |
| Retrocopy | GQGHFQDQSNPGTFMCNNPFKPPSASPDPLSTP*KELNYVSGWGLG>GPLPSQWPPWLFSPSVVPD*GLM |
| Parental | GMQGAGGYDST-MPYGCGRSQPRMRDRDRPKRRGFDRFGPDGTGRKRKQFQLYEEPDTKLARVDSEGDFS |
| G.QGAGGYDS...P.GC..SQ..M.D.D.P.RRGFD.FG....GRK.KQF....EP.TKLA.VDSEGDFS | |
| Retrocopy | GVQGAGGYDSA<WP*GCVHSQGQMQDQDPPRRRGFDPFGLESMGRKQKQFRNCKEPETKLAWVDSEGDFS |
| Parental | ENDDAAGDFRSGDEEFKGEDEFCDSGRQR-GEKEDEDEDVKKRREKQRRRDRTRDRAADRIQFACSVCKF |
| END..AGDF.S.DEEFKGED.FCDSGRQR....ED..E.VKKRREK.RRRDR..D.AADRIQ.A.SVC.F | |
| Retrocopy | ENDNKAGDFHSEDEEFKGEDKFCDSGRQR>KDDED--EEVKKRREK*RRRDRMQD*AADRIQLASSVCNF |
| Parental | RSFDDEEIQKHLQSKFHKETLRFISTKLPDKTVEFLQEYIVNRNKKIEKRRQELMEKETAKPKPDPFKGI |
| ..F.DEEIQKHLQSKFHKETL.FISTKLP.KT.EF..EYI.NRNK.IEK.RQELMEKE..KPKPDPFK.I | |
| Retrocopy | CRFEDEEIQKHLQSKFHKETLQFISTKLPNKTMEFIREYIINRNKEIEKKRQELMEKESTKPKPDPFKEI |
| Parental | GQEHFFKKIEAAHCLACDMLIPAQPQLLQRHLHSVD |
| GQEH.FKKI.AAHCLAC..LIPAQPQLLQ.HLH.VD | |
| Retrocopy | GQEH-FKKIQAAHCLACAVLIPAQPQLLQPHLHFVD |
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 .14 RPM | 20 .09 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 44 .72 RPM |
| SRP007412_heart | 0 .00 RPM | 10 .60 RPM |
| SRP007412_kidney | 0 .00 RPM | 25 .92 RPM |
| SRP007412_liver | 0 .00 RPM | 16 .93 RPM |
| SRP007412_testis | 0 .00 RPM | 34 .71 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_2776 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_2776 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_4131 |
| Pongo abelii | retro_pabe_3472 |
Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000105127 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000013427 | 1 retrocopy |
retro_ggor_2776 ,
|
| Pongo abelii | ENSPPYG00000009671 | 1 retrocopy |