RetrogeneDB ID: retro_ggor_2451

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:93263253..93263888(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025294
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: COPS5
• Ensembl ID: ENSGGOG00000016289
• Aliases: None
• Description: None

Sequence

>retro_ggor_2451
TCCTCAGCGATGGTGACATCCAGGAGTGGTATGGTCTGAAAAACCTGGGAACTGGCCAACAACGTGCAAGAAACTCAGAG
TATCCATGAAATCTACAAATAGACAAGAAGCAGCAGCATGAAATCCTGGCAACAAAGCCCTGGGTTAACAATCACCATTA
CTTTAAAGTACTGCAAAATCTCAGCATTAGCTCTACTGAAGATGATGATGCATGCCAGGTCAGGGGGCAACTTGGAAGTG
ATGGGTTTGATGCCAGAAAAGGTAGATGGTGAAACCACGATTATTATGGGCAGTTTTACTTTGCCTGTGGAGGGCACTGA
AACCCTAGAAAATGGTGAGGCTGCTGCATATGAGTACATGGCCACATACACAGAAAATGCCAAAAAGGTTGGCCGCCTTA
AAAATGCAATTGGATGGTATTATAGGCACCCTGGCCATGGCTGCTGGCTTTCTGGCATCATGTTAGTACTCAGCTGCTCA
ATAAGCGGTTCCAGGAACCATTTACAGCAGTGGTGATTGATCCAACAAGAACAATATCTGCAGGGAAGGTGAATCTTGAT
GCCTTTAGGACATACCCAAAGGGCTACAAACCTCTTGATGAAGGACCTTCTGAGTACCAGACTATCCCGCTTAAT

Alignment

ORF - retro_ggor_2451 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.88 %
• Parental protein coverage: 61.99 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SSAMAASGSGMAQKTWELANNMQEAQSIDEIYK-YDKKQQQEILAAKPWTKDHHYFK-YCKISALALLKM
          SSAM..S.SGM..KTWELANN.QE.QSI.EIYK..DKKQQ.EILA.KPW...HHYFK.YCKISALALLKM
Retrocopy SSAMVTSRSGMV*KTWELANNVQETQSIHEIYK<IDKKQQHEILATKPWVNNHHYFK>YCKISALALLKM

Parental  VMHARSGGNLEVMGLMLGKVDGETMIIMDSFALPVEGTETRVNAQAAAYEYMAAYIENAKQVGRLENAIG
          .MHARSGGNLEVMGLM..KVDGET.IIM.SF.LPVEGTET..N..AAAYEYMA.Y.ENAK.VGRL.NAIG
Retrocopy MMHARSGGNLEVMGLMPEKVDGETTIIMGSFTLPVEGTETLENGEAAAYEYMATYTENAKKVGRLKNAIG

Parental  WYHSHPGYGCWLSGI-DVSTQMLNQQFQEPFVAVVIDPTRTISAGKVNLGAFRTYPKNSKLPQAVPSKGP
          WY..HPG.GCWLSGI..VSTQ.LN..FQEPF.AVVIDPTRTISAGKVNL.AFRTYPK..K.....PS...
Retrocopy WYYRHPGHGCWLSGI<HVSTQLLNKRFQEPFTAVVIDPTRTISAGKVNLDAFRTYPKGYKPLDEGPSEYQ

Parental  FLMVN
          ....N
Retrocopy TIPLN

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	0.72 RPM	36.16 RPM
SRP007412_cerebellum	0.75 RPM	26.67 RPM
SRP007412_heart	0.41 RPM	17.57 RPM
SRP007412_kidney	1.47 RPM	38.19 RPM
SRP007412_liver	0.47 RPM	25.01 RPM
SRP007412_testis	3.63 RPM	134.47 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_2451 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2451 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3634
Pan troglodytes	retro_ptro_2457
Pongo abelii	retro_pabe_2980
Callithrix jacchus	retro_cjac_2454

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004632	1 retrocopy	retro_cjac_2454,
Gorilla gorilla	ENSGGOG00000016289	1 retrocopy	retro_ggor_2451 ,
Microcebus murinus	ENSMICG00000011042	1 retrocopy	retro_mmur_834,
Monodelphis domestica	ENSMODG00000007838	1 retrocopy	retro_mdom_1460,
Mustela putorius furo	ENSMPUG00000010175	1 retrocopy	retro_mputfur_397,