RetrogeneDB ID: retro_ggor_2552

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:136990990..136991571(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000027031
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: UQCRFS1
• Ensembl ID: ENSGGOG00000012978
• Aliases: None
• Description: Cytochrome b-c1 complex subunit Rieske, mitochondrial [Source:UniProtKB/TrEMBL;Acc:G3RB22]

Sequence

>retro_ggor_2552
GGCAGGTTCATGCCCATCCTGTCAGCCATATCCTGCAGGGTGGCAGGCATGCTGTAGCCCCTGGTATAGGCCATGGTGCC
TGCCACCCTGGAGCTGCCTGTGCTGTACAAGGAGCAGCCTTTGCTATGCCAGGAGTCACTGAGTGGCCAGGCCATGAGCC
TGTCTTGGGTCAACTCTGTGGGCCTCAATGTCCCTGCTTCTGTTCGTTATTCCCATACAGACATCAATGTGCCTGACTTC
CCTGATTACTGTTGCATTGAGATTTTTGATGGGACAAAGTCTTCAAAAGAGGATGGCGAGGCTAGGAAAGGGTTCTCCTA
TTTGGTAACTGCAACAACTGCTGTGGGTGTCACATATGCTGCCAAGAATGTCATCTCCCAGTTTGTTTCCAGCATCAGTG
CTTCTGCTGATGAGTCGGCCATGTCGAAAATTGAAATCAAGTTATTTGATATTCCAGAAGGCAAGAACATGGCTTTCAAA
TGGAGAGGCAAATCCCTGTTTGTATGCCACAGAACCAAGAAGGAGATTGACCAAGAACCTGCAGTTGAAGAGTCCTATCT
GAGGGCCCATAGCATGATTTA

Alignment

ORF - retro_ggor_2552 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.13 %
• Parental protein coverage: 70.8 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GPFAPVLSATSREVAGVLRPLVQATVPATPEQPVLDLKRPFLSRESLSGQAVRRPLVASVGLNVPASVCY
          G.F.P.LSA.S..VAG.L.PLV.A.VPAT................SLSGQA.....V.SVGLNVPASV.Y
Retrocopy GRFMPILSAISCRVAGML*PLV*AMVPATXXXXXXXXXXXXXXXXSLSGQAMSLSWVNSVGLNVPASVRY

Parental  SHTDIKVPDFSEYRRLEVLDSTKSSRESSEARKGFSYLVTGVTTVGVAYAAKNAVTQFVSSMSASADVLA
          SHTDI.VPDF..Y...E..D.TKSS.E..EARKGFSYLVT..T.VGV.YAAKN...QFVSS.SASAD..A
Retrocopy SHTDINVPDFPDYCCIEIFDGTKSSKEDGEARKGFSYLVTATTAVGVTYAAKNVISQFVSSISASADESA

Parental  LAKIEIKLSDIPEGKNMAFKWRGKPLFVRHRTQKEIEQEAAVELSQLR-DPQHDL
          ..KIEIKL.DIPEGKNMAFKWRGK.LFV.HRT.KEI.QE.AVE.S.LR..P.HDL
Retrocopy MSKIEIKLFDIPEGKNMAFKWRGKSLFVCHRTKKEIDQEPAVEESYLR<GP*HDL

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	50.69 RPM
SRP007412_cerebellum	0.00 RPM	30.85 RPM
SRP007412_heart	0.00 RPM	71.14 RPM
SRP007412_kidney	0.16 RPM	130.52 RPM
SRP007412_liver	0.00 RPM	43.95 RPM
SRP007412_testis	0.00 RPM	60.30 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_2552 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2552 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000001887	1 retrocopy	retro_cjac_1458,
Gorilla gorilla	ENSGGOG00000012978	1 retrocopy	retro_ggor_2552 ,
Pan troglodytes	ENSPTRG00000010777	1 retrocopy	retro_ptro_56,