RetrogeneDB ID: retro_ggor_1759

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2b:18282645..18283415(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: SSBP4
• Ensembl ID: ENSGGOG00000016931
• Aliases: None
• Description: None

Sequence

>retro_ggor_1759
CCGCACGCACAGCCTCCACCTCACAATCCTAGCAGCATGATGGGACCCCACAGTCAGCCTTTTTTGTCACCGCGATACGC
AGGCGGCCCCAGGCCCCCCGATCAGAATGGGAAACCAGCCTCCGGGAGGAGTTCCTGGGACACAGCCATTGCTGCCCAAT
TTCATGGATCCCGCATGACAACAAGGCCACCCCCACATGGGAGGATCAATGCAGAAAATGAACCCTCCCCGAGGCATGGG
GCCCATGGGTCCCAGCCCACAGAATTACGGCAGCGGCATGAGACCACCACGCAATTCCCTCGGCCCCCCATGCCCGGGAT
TAACATGGGCCCGGGAGCCGGCAGACCCTGGCCCAATCCCAACAGTGCTAACTCAATTCCATACTCCTCCTCATCACCTG
GTACCTATGTGGGACCCCCTGGTGGTGGCGGCCCTCCAGGAACACCCACTATGCCCAGTCCCTCAGATTCAACAAACTCC
AGCGACATCTACACAATGATTAATCCGGTGCCGCCTGGAGGCAGCCGGTCCAACTTCCCGATGGGTCCCGGCTCAGACGG
TCGGATGGGCAGCATGGGCGGCATGGAGCCACACCACATGAACGGATTGTTAGGGTCAGGCGACATAGATGGCTTCCAAA
AACTTATCCTAACAACGTAAATAGTATTAGCAATCCTCCAGGCACCCCTCCAGATGAGGGCGAGCTAGGAGGGAACTTCC
TCCACTCCTTTCAGAATGACAACTATTCTCCAAGCATGACGATGAGTGTG

Alignment

ORF - retro_ggor_1759 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.03 %
• Parental protein coverage: 67.44 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  PGSQPSPHNPNAPMMGPHSQPFMSPRFPGGPRPT-LRMPSQPPAGLPGSQPLLPGAMEPSPRAQGHPSMG
          P..QP.PHNP...MMGPHSQPF.SPR..GGPRP...RM..QPP.G.PG.QPLLP..M.P....QGHP.MG
Retrocopy PHAQPPPHNPSS-MMGPHSQPFLSPRYAGGPRPP>IRMGNQPPGGVPGTQPLLPNFMDPA*Q-QGHPHMG

Parental  GPMQRVTPPRGMASVGPQ-QSYGGGMRPPPNSLAGPG-LPAMNMGPGVRGPWASP-SGNSIPYSSSSPGS
          G.MQ...PPRGM...GP..Q.YG.GMRP.P....GP...P..NMGPG...PW..P.S.NSIPYSSSSPG.
Retrocopy GSMQKMNPPRGMGPMGPSPQNYGSGMRP-PRNSLGPP<MPGINMGPGAGRPWPNPNSANSIPYSSSSPGT

Parental  YTGPPGGGGPPGTPIMPSPGDSTNSSENMYTIMNPIGQGAGRANFPLGPGPEGPMAAMSAMEPHHVNGSL
          Y.GPPGGGGPPGTP.MPSP.DSTNSS...YT..NP...G..R.NFP.GPG..G.M..M..MEPHH.NG.L
Retrocopy YVGPPGGGGPPGTPTMPSPSDSTNSSD-IYTMINPVPPGGSRSNFPMGPGSDGRMGSMGGMEPHHMNGLL

Parental  GSGDMDG-LPKSSPGAVAGLSNAPGTPRDDGEMAAAGTFLHPFPSESYSPGMTMSV
          GSGD.DG.LPK..P..V...SN.PGTP.D.GE....G.FLH.F....YSP.MTMSV
Retrocopy GSGDIDG<LPKTYPNNVNSISNPPGTPPDEGEL--GGNFLHSFQNDNYSPSMTMSV

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	4.46 RPM	27.96 RPM
SRP007412_cerebellum	3.31 RPM	16.55 RPM
SRP007412_heart	0.75 RPM	7.72 RPM
SRP007412_kidney	0.33 RPM	7.11 RPM
SRP007412_liver	0.71 RPM	7.60 RPM
SRP007412_testis	0.62 RPM	9.53 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_1759 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1759 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000130511	1 retrocopy	retro_hsap_1911,
Gorilla gorilla	ENSGGOG00000016931	1 retrocopy	retro_ggor_1759 ,
Pan troglodytes	ENSPTRG00000010709	2 retrocopies	retro_ptro_1250, retro_ptro_1640,