RetrogeneDB ID: retro_ggor_2095

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:64565769..64566264(-)
• Located in intron of: ENSGGOG00000001148

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL22
• Ensembl ID: ENSGGOG00000010232
• Aliases: None
• Description: None

Sequence

>retro_ggor_2095
GGTCTCCTTCATCTCAGCATTTTATCCCAATCCCAGGTCCACACAAGTGCTTCTCTTGACACTTCTCAAAAATGGGAGAA
GAAGAATAAAACCGTTTATCCTCCACAACTGCCTGCAGAACCTCAGAGACCAGCAGAAATCTACCAATACCAAAGAAAAC
TAAAAGACAGCAAAGACAAGATGTTGTATTTGGCAAAATTGGTAGGAGAAATGTCCACTGACCAGGCTTAGCTCAACTGG
GATTCAGTGACAAAAAGGGACCCAAATCATTAAAGATGTTCTCTTAGAAGCACAAGACATGGCAGTGAAAGACCACAATG
TGGAATTCAGATCCGGTTTATATATAAACTGAGTCCACCTCACGGGGAGGCCAGTGCCTGACAGGTTTCTGCTACCAAAG
TAGAGGTTGCTTTGGGATCATGAAGGTTACTGCCATTATTTTATGAAGCTGGTGGAAGGGCCTCCCCACCTCCATGTGAA
GCACCCAAGATGGCG

Alignment

ORF - retro_ggor_2095 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.51 %
• Parental protein coverage: 80.58 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  GKLALGVLPQSYIHTSASLDVSRKWEKKNKIVYPPQLPGEPRRPAEIYHCRRQIKYSKDKMWYLAKLIRG
          G.L.L..L.QS..HTSASLD.S.KWEKKNK.VYPPQLP.EP.RPAEIY...R..K.SKDKM.YLAKL...
Retrocopy GLLHLSILSQSQVHTSASLDTSQKWEKKNKTVYPPQLPAEPQRPAEIYQYQRKLKDSKDKMLYLAKLVGE

Parental  MSIDQA-LAQLEFNDKKGAK-IIKEVLLEAQDMAVRDHNVEFRSNLYI-AESTSGRGQCLKRIRYHGRGR
          MS.DQA.LAQL.F.DKKG.K.IIK.VLLEAQDMAV.DHNVEFRS.LYI..ESTS..GQCL....Y..RG.
Retrocopy MSTDQA<LAQLGFSDKKGPK<IIKDVLLEAQDMAVKDHNVEFRSGLYI>TESTSRGGQCLTGFCYQSRGC

Parental  FGIMEKV-YCHYFVKLVEGPP-PPP-EPPKTA
          FGIM.KV.YCHYF.KLVEGPP.PPP.E.PK.A
Retrocopy FGIM-KV<YCHYFMKLVEGPP<PPPCEAPKMA

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	12.61 RPM
SRP007412_cerebellum	0.00 RPM	10.87 RPM
SRP007412_heart	0.00 RPM	10.76 RPM
SRP007412_kidney	0.00 RPM	22.82 RPM
SRP007412_liver	0.00 RPM	14.80 RPM
SRP007412_testis	0.00 RPM	34.60 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_2095 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2095 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3041
Pan troglodytes	retro_ptro_1997
Pongo abelii	retro_pabe_2436
Macaca mulatta	retro_mmul_1889
Callithrix jacchus	retro_cjac_2187

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003875	1 retrocopy	retro_acar_88,
Callithrix jacchus	ENSCJAG00000007325	2 retrocopies	retro_cjac_2187, retro_cjac_2558,
Homo sapiens	ENSG00000082515	1 retrocopy	retro_hsap_3041,
Gorilla gorilla	ENSGGOG00000010232	1 retrocopy	retro_ggor_2095 ,
Mus musculus	ENSMUSG00000020514	1 retrocopy	retro_mmus_1294,
Nomascus leucogenys	ENSNLEG00000016692	1 retrocopy	retro_nleu_1928,
Pongo abelii	ENSPPYG00000015979	1 retrocopy	retro_pabe_2436,
Pan troglodytes	ENSPTRG00000017453	1 retrocopy	retro_ptro_1997,