RetrogeneDB ID: retro_ggor_474

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:202609408..202610371(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: QRSL1
• Ensembl ID: ENSGGOG00000008261
• Aliases: None
• Description: None

Sequence

>retro_ggor_474
GTTGGTTTCAAACCAAGCTATGGCTTACTTTCCCGTCATGGTCTCATTCCCCTGGTGAATTTGATGGATCTGCCAGGTAT
CTTAACCAGATGTGTGGATGATGCAGCAATTGTGTTGGGTGTACTGGCTGGACATGACCTCAAGGATTCTACCACAGTAC
AAGATCCTGTTAAACCATTCATACTTCCCAGTTTGACAGATGTAAACAAACTATGTACAGGAATTCCAAAAAAAAATCTT
GTACCATAATTATCAGTGAAGTACAATCTCTTTGGTCCAAAGCTGCTGACCTCTTTGTGTCTGCGAGGGCCAAAATAATT
GAAGCATCCCTTCCTCACACCAGTTATTCAGTTGTCTGCTACCATGTATTGTGCACACTGGAAGTGGCATCAAATATGGC
AAGATTTGATGGGCTACGATATGGTCACAGATGTGACATTGATGTGTCCACTGAAGCCAGGTATGCTGCAACCAGACAAG
AAGGATTCAATGATGTGGTGAGAGGAAGAATTCTCTCAGGAAACTTTTTCTTCTTAAAAAAACTATGAAAATTATTTCAT
CAAAACACAGAAGGTGAAATACCTCATTGATAATGATTTTGTGAATGCTTTTAACTCTGGAGTAGATGTCTTGCTAACTC
CCACCACCTTGAGTGAGGCAGTACTATACTTGGAATTCATCAAAGAAGACAACACAACAAGAAGTGCCCAGGATGATAGT
TTCACACAGGCTGTAAACATGGCAGGATTGCCAACAGTGAGTATTCCTGTTGCACTTTCAAACCAAGGGTTGCCAACAGG
ACTGTAGCTTACTGAATGTGCATTTTGTGACCAGCAGCTTCTTACCATAGCCAAATGATTTGAAAAACAAGTACAGTTTT
CTGTTACTCAACTTCAAGAACTCATGGATGGTTGTTCATCAATCCTTGAAAATGAAAAACTAGCCTCTGTCTCTCTAAAA
CAG

Alignment

ORF - retro_ggor_474 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.82 %
• Parental protein coverage: 61.17 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VGFKPSYGLVSRHGLIPLVNSMDVPGILTRCVDDAAIVLGALAGPDPRDSTTVHDPINKPFMLPSLADVS
          VGFKPSYGL.SRHGLIPLVN.MD.PGILTRCVDDAAIVLG.LAG.D..DSTTV.DP..KPF.LPSL.DV.
Retrocopy VGFKPSYGLLSRHGLIPLVNLMDLPGILTRCVDDAAIVLGVLAGHDLKDSTTVQDPV-KPFILPSLTDVN

Parental  KLCIGIPKEYLVPELS-SEVQSLWSKAADLFESEGAKVIEVSLPHTSYSIVCYHVLCTSEVASNMARFDG
          KLC.GI....LVP.LS.SEVQSLWSKAADLF.S..AK.IE.SLPHTSYS.VCYHVLCT.EVASNMARFDG
Retrocopy KLCTGIXXXXLVP*LS<SEVQSLWSKAADLFVSARAKIIEASLPHTSYSVVCYHVLCTLEVASNMARFDG

Parental  LQYGHRCDIDVSTEAMYAATRREGFNDVVRGRILSGNFF-LLKE-NYENYFVKAQKVRRLIANDFINAFN
          L.YGHRCDIDVSTEA.YAATR.EGFNDVVRGRILSGNFF.LLK..NYENYF.K.QKV..LI.NDF.NAFN
Retrocopy LRYGHRCDIDVSTEARYAATRQEGFNDVVRGRILSGNFF<LLKK<NYENYFIKTQKVKYLIDNDFVNAFN

Parental  SGVDVLLTPTTLSEAVPYLEFIKEDNRTRSAQDDIFTQAVNMAGLPAVSIPVALSNQGLPIGLQFIGRAF
          SGVDVLLTPTTLSEAV.YLEFIKEDN.TRSAQDD.FTQAVNMAGLP.VSIPVALSNQGLP.GL.....AF
Retrocopy SGVDVLLTPTTLSEAVLYLEFIKEDNTTRSAQDDSFTQAVNMAGLPTVSIPVALSNQGLPTGL*LTECAF

Parental  CDQQLLTVAKWFEKQVQFPVIQLQELMDDCSAVLENEKLASVSLKQ
          CDQQLLT.AK.FEKQVQF.V.QLQELMD.CS..LENEKLASVSLKQ
Retrocopy CDQQLLTIAK*FEKQVQFSVTQLQELMDGCSSILENEKLASVSLKQ

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	0.00 RPM	7.48 RPM
SRP007412_cerebellum	0.00 RPM	7.72 RPM
SRP007412_heart	0.00 RPM	4.47 RPM
SRP007412_kidney	0.00 RPM	14.07 RPM
SRP007412_liver	0.00 RPM	6.23 RPM
SRP007412_testis	0.00 RPM	16.16 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_474 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_474 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_514
Pongo abelii	retro_pabe_230
Macaca mulatta	retro_mmul_429

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017557	3 retrocopies	retro_btau_476, retro_btau_493, retro_btau_616,
Choloepus hoffmanni	ENSCHOG00000001036	1 retrocopy	retro_chof_2382,
Callithrix jacchus	ENSCJAG00000006200	4 retrocopies	retro_cjac_1421, retro_cjac_3781, retro_cjac_3919, retro_cjac_692,
Cavia porcellus	ENSCPOG00000021670	1 retrocopy	retro_cpor_179,
Homo sapiens	ENSG00000130348	3 retrocopies	retro_hsap_1321, retro_hsap_466, retro_hsap_514,
Gorilla gorilla	ENSGGOG00000008261	3 retrocopies	retro_ggor_1031, retro_ggor_445, retro_ggor_474 ,
Macaca mulatta	ENSMMUG00000008330	2 retrocopies	retro_mmul_429, retro_mmul_675,
Nomascus leucogenys	ENSNLEG00000013383	2 retrocopies	retro_nleu_1403, retro_nleu_1550,
Pongo abelii	ENSPPYG00000016883	3 retrocopies	retro_pabe_1100, retro_pabe_230, retro_pabe_268,
Pan troglodytes	ENSPTRG00000018462	2 retrocopies	retro_ptro_351, retro_ptro_902,