RetrogeneDB ID: retro_ggor_820

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:88641802..88642719(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL2
• Ensembl ID: ENSGGOG00000010552
• Aliases: None
• Description: None

Sequence

>retro_ggor_820
ATGGCCCTGTGGGCACTGACCTGCACTCTGCACTCTCTGAGCCTGGCACCCCCGACCGTTGCCACTTCTGTCCCGAGTCT
GTTCCCTGCCTCCCAGGTGATGAACAATGCCCTCTTCCAATGGCCCTCTGCCTTGATGTTGCTCCCCTGCCACCAAATCC
TTACTTCTATGGCCCTTAGTGCCAACTTTGTGTCTTGAAAGAGTCATACCAAGTACACAATTAAACCAGTGAAGATGAGG
AAGTCTGGGGGTGAAGACCACACAGGCCAGATCTGGGTGCACGGTATTGGCAGGGGCCACAAGCAACATTATTGCATGAT
TGACTTTTGTGTTTCTGGCCTGAGGAGGAGACCAAGTCAGGACCCTTTGAGGAGAAGGTTATCCAAGTCCACCGTGATCC
CTGTAGGTCAGCAGACATAGCTCTGGTTGCTGGGGGCAGCCAGAAACACTGGATCATCACCACAGAAAACATGCAGGCTG
GAGATACAATCCTGAACTCTAACCACATAGGCCAAATGGCAGTTGCTGCTCAGGAATGGGATGCACATCCACTTGGGGCT
CTGCCTGTGGGAACCCTCATCAACAACATGGAAAGTGAGCCAGGCCGGGGTGCCCAGTATATCCAAGCTGCAGGGACGTG
TAGTGTGCTACTGTGGAAGGTGAATGGCACAACCGTTATCCAGCTGCCCTCTAAGAGGCAGATGCAGGTGCTGGAAACAT
GCATAGCAACAGTAGGCTGAGTATCCAACACTGATCATAACAAACAGGTCACTGGCAGGGCAGGTCACAACCGTTGGCTG
GGCAAGAGGCCTTCCAGTGGGCTACAGCACCGCAAGGGGTGCTGGGCTGGCTGAAAGATTTGGCCACTATCCTTCATGAA
GAGTTATGTGAAGCTGCCTTCTGATGCTGCCCAAAGC

Alignment

ORF - retro_ggor_820 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.46 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MALWALTRALRSLNLGPPTVAAPAPSLFPAAQMMNNGLLQQPSALMLLPCRPFLTSVALNANFVSWKSRT
          MALWALT..L.SL.L.PPTVA...PSLFPA.Q.MNN.L.Q.PSALMLLPC...LTS.AL.ANFVS.KS.T
Retrocopy MALWALTCTLHSLSLAPPTVATSVPSLFPASQVMNNALFQWPSALMLLPCHQILTSMALSANFVS*KSHT

Parental  KYTITPVKMRKSGGRDHTGQIRVHGIGGGHKQRYRMIDF-LRFRPEE-TKSGPFEEKVIQVRYDPCRSAD
          KYTI.PVKMRKSGG.DHTGQI.VHGIG.GHKQ.Y.MIDF.L.F.PEE.TKSGPFEEKVIQV..DPCRSAD
Retrocopy KYTIKPVKMRKSGGEDHTGQIWVHGIGRGHKQHYCMIDF<LCFWPEEETKSGPFEEKVIQVHRDPCRSAD

Parental  IALVAGGSRKRWIIATENMQAGDTILNSNHIGRMAVAAREGDAHPLGALPVGTLINNVESEPGRGAQYIR
          IALVAGGS.K.WII.TENMQAGDTILNSNHIG.MAVAA.E.DAHPLGALPVGTLINN.ESEPGRGAQYI.
Retrocopy IALVAGGSQKHWIITTENMQAGDTILNSNHIGQMAVAAQEWDAHPLGALPVGTLINNMESEPGRGAQYIQ

Parental  AAGTCGVLLRKVNGTAIIQLPSKRQMQVLETCVATVGRVSNVDHNKRVIGKAGRNRWLGKRPNSGRWHRK
          AAGTC.VLL.KVNGT..IQLPSKRQMQVLETC.ATVG.VSN.DHNK.V.G.AG.NRWLGKRP.SG..HRK
Retrocopy AAGTCSVLLWKVNGTTVIQLPSKRQMQVLETCIATVG*VSNTDHNKQVTGRAGHNRWLGKRPSSGLQHRK

Parental  GGWAGRKIRPLPPMKSYVKLPSAAAQS
          G.WAG.KI.PL..MKSYVKLPS.AAQS
Retrocopy GCWAG*KIWPLSFMKSYVKLPSDAAQS

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	30.40 RPM
SRP007412_cerebellum	0.00 RPM	19.86 RPM
SRP007412_heart	0.00 RPM	34.55 RPM
SRP007412_kidney	0.04 RPM	38.11 RPM
SRP007412_liver	0.00 RPM	43.73 RPM
SRP007412_testis	0.00 RPM	27.97 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_820 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_820 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1039
Pan troglodytes	retro_ptro_709
Pongo abelii	retro_pabe_871
Macaca mulatta	retro_mmul_827

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000005134	1 retrocopy	retro_acar_136,
Callithrix jacchus	ENSCJAG00000005116	1 retrocopy	retro_cjac_3318,
Homo sapiens	ENSG00000112651	1 retrocopy	retro_hsap_1039,
Gorilla gorilla	ENSGGOG00000010552	1 retrocopy	retro_ggor_820 ,
Macaca mulatta	ENSMMUG00000002450	1 retrocopy	retro_mmul_827,
Nomascus leucogenys	ENSNLEG00000004370	1 retrocopy	retro_nleu_912,
Otolemur garnettii	ENSOGAG00000034421	2 retrocopies	retro_ogar_1582, retro_ogar_1842,
Pongo abelii	ENSPPYG00000016630	1 retrocopy	retro_pabe_871,
Pan troglodytes	ENSPTRG00000018186	1 retrocopy	retro_ptro_709,
Rattus norvegicus	ENSRNOG00000018057	1 retrocopy	retro_rnor_555,