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 symbol: AKAP8
• Ensembl ID: ENSGGOG00000013427
• Aliases: None
• Description: None

Sequence

>retro_ggor_2776
GGCCCAGTCTCATAGGAGGCCACCAAGGCAAGCAAAGGTGGCCTGGTGGCCGAGGCCACTTCCATGCACATGGCCTCTTA
TGGCCCAGAGCGGGGCACCTACAATTGCAACTCCCTCACTGCCAAGATCAATCAGCTTTTGGACATGATGTCCAAGGAAG
AAGGCAGTGGGGGGAGCGGCCACGGTGGGGAGGGCATGCAGGACTGGGAGAGCTCCTTCTACTTGCAGACCTTGGAGTCC
TGTGACTCCATGGCCTGCCTGCCAGAGCACAGCCCCTACTGCCCCAGCTACAGCTACGACTACAACTTCGACCTAGGGTT
CCACCGCAATGGCAGCTTTCAGGGGCAGTACAGTGAATGTTGAGACCTGGCCCTGGAGTAGGGCTCCCTCAATGGCTTCA
TGCCGGGCGGGGCCATGGCCAGGGCCATTTCCAGGACCAAAGCAATCCCGGCACCTTCATGTGCAACAACCCCTTCAAGC
CACCCTCAGCCTCCCCTGATCCTCTATCTACGCCCTAGAAAGAGCTGAACTACGTGAGTGGATGGGGTCTGGGAAGGCCC
TCTCCCCAGCCAATGGCCTCCTTGGCTCTTCTCCCCGTCCGTGGTTCCTGACTAAGGCTTGATGGGCGTGCAGGGGGCGG
GTGGCTATGACAGCGCTGGCCTTAAGGATGTGTTCACTCGCAGGGCCAAATGCAGGATCAGGATCCACCCAGAAGGAGAG
GGTTTGACCCGTTTGGGCTAGAAAGCATGGGAAGGAAACAGAAGCAGTTCCGGAACTGTAAGGAGCCAGAGACCAAACTA
GCCTGGGTTGACAGCGAAGGAGATTTCTCAGAAAATGATAACAAAGCTGGTGATTTCCACTCAGAAGATGAAGAATTCAA
AGGTGAGGATAAATTCTGTGACTCTGGTAGGCAGAGAGAAGGACGACGAGGATGAGGAAGTGAAAAAGAGAAGGGAAAAA
TAAAGGAGGAGAGACAGGATGCAGGACTGAGCAGCCGACAGGATTCAGTTGGCCTCTTCTGTGTGCAATTTCTGTAGATT
TGAAGACGAAGAGATCCAGAAGCATCTGCAAAGCAAATTTCACAAAGAGACGCTGCAGTTTATAAGCACCAAGCTGCCCA
ACAAGACAATGGAATTCATCCGGGAATACATTATAAACAGGAATAAAGAAATTGAGAAGAAGCGTCAGGAATTGATGGAG
AAAGAAAGCACAAAACCAAAACCAGATCCTTTCAAAGAGATTGGCCAGGAGCACTTTAAGAAGATCCAGGCTGCTCACTG
CCTGGCCTGTGCCGTGCTGATCCCAGCGCAGCCACAGCTTCTCCAGCCACACCTGCACTTCGTTGAC

Alignment

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

Expression

RNA-Seq

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

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_2776 was not experimentally validated.

Homology

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

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000105127	1 retrocopy	retro_hsap_4131,
Gorilla gorilla	ENSGGOG00000013427	1 retrocopy	retro_ggor_2776 ,
Pongo abelii	ENSPPYG00000009671	1 retrocopy	retro_pabe_3472,