RetrogeneDB ID: retro_ggor_515

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:77175921..77176932(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000006481
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ANXA2
• Ensembl ID: ENSGGOG00000009738
• Aliases: None
• Description: Annexin [Source:UniProtKB/TrEMBL;Acc:G3R2Q2]

Sequence

>retro_ggor_515
GCTTCCTTCAAAATGTATACTATTTATGAAATCCTGTGCAAGCTCAGCTTGGAGGGTGATCACTCTACACCCTCAGGTGC
ATATGGGTCAGTCAAAGCCTACACCAACTTTGATGCTGAGGGGGATGCTTTGAACATTGAAAGGACCATCAGGACATAAG
GTGTGGGTAAGTTCACCATTGTCAACATTTTGACCAACAGCAGGAATGCTCGGAGAGAGGATGTTGCCTTTGCCTATCAG
AGAAGGACCACAAAGGAACTTGCATCAGCACTGAAGTCAGCCTTACTGGCCACCTGGAGACAGTCATTTTGGGCCTATTG
AAGACACCTGCTCAGTATGATGCTTCTGAGCTAAAAGCTTCCATGAAGGGGCTGGGAACTGAGGAGGACTCCCTCGTTGA
GATCATCTGCTCAACAACCAACCAGGAGCTCCAGGGAATTAACAGAGTCTACAAAGAAATGTACAAAACTGATCTGGAGA
AGGACATTATTTCGGACACATATGGTGACTTCTGCAAGCTGATGTTTGCCCTGGCAAATGTTAGAAGACCAGAGGATGGC
TCTGTCATTGATTATGAACTGATTGACCAAGATGCCCGGGATTTCTGTGATGCTGGAGTGAAGAGGAAAAGAACTGACAT
TCCCAAGTGGATCAGCATGATGACCGAGCAGAGCATGTCCCACCTCCAGAAAGTATTTGATAGGTACAAGAGCTACAGCC
CATCAAGAGAGAGCATCAAGAAAGAGGTTAAAGGAGACCTGGAAAATGCTTTCCTGAACCTGGTCCAGTGCATTCAGAAC
AAGCCCCTGTATTTTGCTGATTGGCTGTACTACTCCATGAAGGGCCAGGGGGCTCGAGATAAGGTCCTGATCAGAATCAT
CGTCTCCCACAGTGAAGTGGACATGTTGAAAATTAGGTCTGAATTCAAGAGAAAGTATGGCATGTCCCCGTACTATTACA
TCCAGCAAGACACTAAGAACGACTACCCAGAAAGCACTGCTGTACCTGTGT

Alignment

ORF - retro_ggor_515 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.16 %
• Parental protein coverage: 94.96 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ASFKMSTVHEILCKLSLEGDHSTPPSAYGSVKAYTNFDAERDALNIETAIKTKGVDEVTIVNILTNRSNA
          ASFKM.T..EILCKLSLEGDHSTP..AYGSVKAYTNFDAE.DALNIE..I.T.GV...TIVNILTN..NA
Retrocopy ASFKMYTIYEILCKLSLEGDHSTPSGAYGSVKAYTNFDAEGDALNIERTIRT*GVGKFTIVNILTNSRNA

Parental  QRQDIAFAYQRRTKKELASALKSAL-SGHLETVILGLLKTPAQYDASELKASMKGLGTDEDSLIEIICSR
          .R.D.AFAYQRRT.KELASALKSAL..GHLETVILGLLKTPAQYDASELKASMKGLGT.EDSL.EIICS.
Retrocopy RREDVAFAYQRRTTKELASALKSAL<TGHLETVILGLLKTPAQYDASELKASMKGLGTEEDSLVEIICST

Parental  TNQELQEINRVYKEMYKTDLEKDIISDTSGDFRKLMVALAKGRRAEDGSVIDYELIDQDARDLYDAGVKR
          TNQELQ.INRVYKEMYKTDLEKDIISDT.GDF.KLM.ALA..RR.EDGSVIDYELIDQDARD..DAGVKR
Retrocopy TNQELQGINRVYKEMYKTDLEKDIISDTYGDFCKLMFALANVRRPEDGSVIDYELIDQDARDFCDAGVKR

Parental  KGTDVPKWISIMTERSVPHLQKVFDRYKSYSPYDMLESIRKEVKGDLENAFLNLVQCIQNKPLYFADRLY
          K.TD.PKWIS.MTE.S..HLQKVFDRYKSYSP....ESI.KEVKGDLENAFLNLVQCIQNKPLYFAD.LY
Retrocopy KRTDIPKWISMMTEQSMSHLQKVFDRYKSYSP--SRESIKKEVKGDLENAFLNLVQCIQNKPLYFADWLY

Parental  DSMKGKGTRDKVLIRIMVSRSEVDMLKIRSEFKRKYGKSLYYYIQQDTKGDY-QKALLYLC
          .SMKG.G.RDKVLIRI.VS.SEVDMLKIRSEFKRKYG.S.YYYIQQDTK.DY.QKALLYLC
Retrocopy YSMKGQGARDKVLIRIIVSHSEVDMLKIRSEFKRKYGMSPYYYIQQDTKNDY>QKALLYLC

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	0.14 RPM	21.72 RPM
SRP007412_cerebellum	0.16 RPM	12.61 RPM
SRP007412_heart	0.00 RPM	57.72 RPM
SRP007412_kidney	0.00 RPM	157.75 RPM
SRP007412_liver	0.00 RPM	189.05 RPM
SRP007412_testis	0.00 RPM	113.86 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_515 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_515 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016686	3 retrocopies	retro_cfam_1631, retro_cfam_367, retro_cfam_707,
Homo sapiens	ENSG00000182718	3 retrocopies	retro_hsap_3114, retro_hsap_4150, retro_hsap_580,
Gorilla gorilla	ENSGGOG00000009738	3 retrocopies	retro_ggor_2137, retro_ggor_2788, retro_ggor_515 ,
Macropus eugenii	ENSMEUG00000008980	3 retrocopies	retro_meug_1000, retro_meug_312, retro_meug_389,
Myotis lucifugus	ENSMLUG00000002464	3 retrocopies	retro_mluc_1569, retro_mluc_2223, retro_mluc_2431,
Monodelphis domestica	ENSMODG00000011604	1 retrocopy	retro_mdom_1471,
Mustela putorius furo	ENSMPUG00000000762	2 retrocopies	retro_mputfur_73, retro_mputfur_79,
Nomascus leucogenys	ENSNLEG00000011678	2 retrocopies	retro_nleu_769, retro_nleu_802,
Pongo abelii	ENSPPYG00000006526	2 retrocopies	retro_pabe_2572, retro_pabe_607,
Pan troglodytes	ENSPTRG00000007132	2 retrocopies	retro_ptro_2106, retro_ptro_81,