RetrogeneDB ID: retro_ggor_568

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:24694692..24695627(-)
• Located in intron of: ENSGGOG00000034926

Retrocopy information

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

Parental gene information

• Parental gene symbol: HNRNPR
• Ensembl ID: ENSGGOG00000013250
• Aliases: None
• Description: None

Sequence

>retro_ggor_568
GCTGGAAAAGTAAAAGTATGGGGAAATGTAGTTACAGTTGAATGGGCTAACCCTGTGAAGAACCATATCCAGAAGTCATG
GCTAAGGTAAAAGTATTCTTTGTGAGAAACTTGGGCACAGACAAAATATTGGAAAAGTCATTTTCTGAATTTGGAGAACT
CCAAAGAGTAAATAAGTTGAAAGATTATGCATTTGTTCATTCTGAAGACAGACGAGCAGCTGTTATGGCTATGGATGAAA
TGAATGGCAAAGAAACAGAAGGGGAAGAACTTGAAATAGTCTTAGCCAAGCCACCAGACAAGAAAAGGAAAGAGCGCCAA
GCTGCTAGACAGGCCTCCAGAAGCACTGCATATGAAGATTATCACTACACCCTCCTCCTCGCATGCCGCTTCCGATTAGA
GGTTGGGGGAGAGGTAGATATGGCTACCCTCCAGATTACTATGGCATGAAGATTACTACGGTTATGATTACCACAACTAT
CATGGAGGTTACGAAGATTCCCTACTATGGCTATGATGATGGCTATGCAGTAAGAGGAAGAGGAGGAAGGGGAGGGCAGG
GTGCTCCACCACCACCAAGGGGGAGGGGAGCACCACCTCCAAGAGGTAGAGCTGGCTATTCACAAAAGGGGGCACCTTTG
GGACCACCACGAGGCTGTAGGGGTGGCAGAGACGGTCCTGCACAATAGCAGAGAGGCCGTGGCCGTGGTTCCCGTGGCTC
TCAGGGCAATCAGGGGACAACGTAGGAGGCAAGAGAAGGCAGATGCTTACAACCAACCTGATTCCAAGCATCGTCAAACC
AACAAACAACAGAACTGGGTCTCTCAACCCATCGCTCAGCAGCCGCTTCAGCAAGGTGGTGACTATTCTGGTAACTATGG
TTACAATAATGACAACGAGGAATTTTATCAGGATACTTATGGGCAACAATGGAAG

Alignment

ORF - retro_ggor_568 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.38 %
• Parental protein coverage: 50.71 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  SGKVKVWGNVVTVEWADPV-EEPDPEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKDYAFV
          .GKVKVWGNVVTVEWA.PV.EEP.PEVMAKVKV.FVRNL....T..ILEKSFSEFG.L.RV.KLKDYAFV
Retrocopy AGKVKVWGNVVTVEWANPV<EEPYPEVMAKVKVFFVRNLG---TDKILEKSFSEFGELQRVNKLKDYAFV

Parental  HFEDRGAAVKAMDEMNGKEIEGEEIEIVLAKPPDKKRKERQAARQASRSTAYEDYYY-HPPPRMPPPIRG
          H.EDR.AAV.AMDEMNGKE.EGEE.EIVLAKPPDKKRKERQAARQASRSTAYEDY.Y.HPPPRMP.PIRG
Retrocopy HSEDRRAAVMAMDEMNGKETEGEELEIVLAKPPDKKRKERQAARQASRSTAYEDYHY<HPPPRMPLPIRG

Parental  RGRGGGRGGYGYPPDYYG-YEDYYDDYYGYDYHDYRGGYED-PYYGYDDGYAVRGRGGGRGGRGAPPPPR
          .GR..GR.GY..PPDYYG..EDYY....GYDYH.Y.GGYED.PYYGYDDGYAVRGR.GGRGG.GAPPPPR
Retrocopy WGR--GRYGY--PPDYYG<HEDYY----GYDYHNYHGGYED>PYYGYDDGYAVRGR-GGRGGQGAPPPPR

Parental  GRGAPPPRGRAGYSQRGAPLGPPRGSRGGRGGPAQQQ--RGRGSRGSRGNR-GGNVGGKR-KADGYNQPD
          GRGAPPPRGRAGYSQ.GAPLGPPRG.RGGR.GPAQ.Q..RGRGSRGS.GN..G.NVGGKR.KAD.YNQPD
Retrocopy GRGAPPPRGRAGYSQKGAPLGPPRGCRGGRDGPAQ*QRGRGRGSRGSQGNQ<GDNVGGKR<KADAYNQPD

Parental  SKRRQTNNQQNWGSQPIAQQPLQQGGDYSGNYGYNNDNQEFYQDTYGQQWK
          SK.RQTN.QQNW.SQPIAQQPLQQGGDYSGNYGYNNDN.EFYQDTYGQQWK
Retrocopy SKHRQTNKQQNWVSQPIAQQPLQQGGDYSGNYGYNNDNEEFYQDTYGQQWK

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	0.05 RPM	79.65 RPM
SRP007412_cerebellum	0.04 RPM	76.04 RPM
SRP007412_heart	0.03 RPM	23.42 RPM
SRP007412_kidney	0.00 RPM	65.87 RPM
SRP007412_liver	0.05 RPM	35.58 RPM
SRP007412_testis	0.21 RPM	97.18 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_568 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_568 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_651
Pan troglodytes	retro_ptro_474
Macaca mulatta	retro_mmul_2433

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000125944	1 retrocopy	retro_hsap_651,
Gorilla gorilla	ENSGGOG00000013250	1 retrocopy	retro_ggor_568 ,
Macaca mulatta	ENSMMUG00000010970	1 retrocopy	retro_mmul_2433,
Monodelphis domestica	ENSMODG00000016144	1 retrocopy	retro_mdom_240,
Mus musculus	ENSMUSG00000066037	1 retrocopy	retro_mmus_458,
Otolemur garnettii	ENSOGAG00000009179	1 retrocopy	retro_ogar_3144,
Procavia capensis	ENSPCAG00000010462	1 retrocopy	retro_pcap_88,
Pan troglodytes	ENSPTRG00000000324	1 retrocopy	retro_ptro_474,
Tupaia belangeri	ENSTBEG00000002251	1 retrocopy	retro_tbel_4256,