RetrogeneDB ID: retro_ggor_807

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:65726902..65727429(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL40
• Ensembl ID: ENSGGOG00000012336
• Aliases: None
• Description: None

Sequence

>retro_ggor_807
ACCCACCAGCGAGCTTCAGTGTTGTCCTCCTACGAACTCATTCCTGTGAGAGCAGAACCTCTTCGAGAGCAGAAGGTGAA
TTCTAAAAAAGACCAAGCAGGAAAGGGCTGCTTGAAAAATAAGATATGAAAACTGGAAAAGGCTAGCCAAGAGCTCATTC
TTGTTGCAGATTTTATTAGCCTTGTGAGGTTCTTGGATAAAGCAAGCCAGTGGCCTCAGGTGGAGCTCTCCTTGGAGGAG
AGTGAGTGGAGAGCTCTGCTTCTGATGAGTGGTCTCTGTACAAGCAGCGAGAGCACACTGTGGACAGGGACACCATCAAG
GCTGTGCTGGGGACCCAGCAGGAAGCTCTGCAGGAGCTACCACTTGAGTCCCCTGAGTTCCCCACTGAGACCATCAAGTG
GGACTGCAGCATGTTCCCCTTTGAATGGGAAGGTCCAGATTATACACTATGGGTCTCTAACTACCAGCCCCCCAAAGGCA
GGTACAATGACATCACCAAGATGTACACACAGGTAGAGCTCAAAAGA

Alignment

ORF - retro_ggor_807 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.17 %
• Parental protein coverage: 85.92 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  THQRASLLSFWELIPMRSEPLRKKKKVDPKKDQEAKERLKRKIRKLEKATQELIPIEDFITPLKFLDKAR
          THQRAS.LS..ELIP.R.EPLR..K.V..KKDQ..K..LK.KI.KLEKA.QELI...DFI....FLDKA.
Retrocopy THQRASVLSSYELIPVRAEPLREQK-VNSKKDQAGKGCLKNKI*KLEKASQELILVADFISLVRFLDKAS

Parental  ERPQVELTFEETERRALLLR-KWSLYKQQEHKMERDTIRAMLEAQQEALEELRLESPKLHAEAIKRDPNL
          ..PQVEL..EE.E.RALLL...WSLYKQ.EH...RDTI.A.L..QQEAL.EL.LESP....E.IK.D...
Retrocopy QWPQVELSLEESEWRALLLM<EWSLYKQREHTVDRDTIKAVLGTQQEALQELPLESPEFPTETIKWDCSM

Parental  FPFEKEGPHYTPPIPNYQPPEGRYNDITKVYTQVEFKR
          FPFE.EGP.YT....NYQPP.GRYNDITK.YTQVE.KR
Retrocopy FPFEWEGPDYTLWVSNYQPPKGRYNDITKMYTQVELKR

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	13.33 RPM
SRP007412_cerebellum	0.00 RPM	12.88 RPM
SRP007412_heart	0.00 RPM	18.98 RPM
SRP007412_kidney	0.00 RPM	29.11 RPM
SRP007412_liver	0.00 RPM	35.00 RPM
SRP007412_testis	0.10 RPM	23.83 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_807 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_807 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1020
Pongo abelii	retro_pabe_857
Callithrix jacchus	retro_cjac_3220

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000001053	1 retrocopy	retro_acar_149,
Ailuropoda melanoleuca	ENSAMEG00000011421	1 retrocopy	retro_amel_257,
Callithrix jacchus	ENSCJAG00000001584	1 retrocopy	retro_cjac_3220,
Equus caballus	ENSECAG00000009876	1 retrocopy	retro_ecab_687,
Homo sapiens	ENSG00000185608	1 retrocopy	retro_hsap_1020,
Gorilla gorilla	ENSGGOG00000012336	1 retrocopy	retro_ggor_807 ,
Myotis lucifugus	ENSMLUG00000002456	1 retrocopy	retro_mluc_1950,
Macaca mulatta	ENSMMUG00000016081	1 retrocopy	retro_mmul_57,
Mustela putorius furo	ENSMPUG00000003865	1 retrocopy	retro_mputfur_394,
Nomascus leucogenys	ENSNLEG00000005372	1 retrocopy	retro_nleu_899,
Pongo abelii	ENSPPYG00000011578	1 retrocopy	retro_pabe_857,
Rattus norvegicus	ENSRNOG00000049686	1 retrocopy	retro_rnor_1624,
Tarsius syrichta	ENSTSYG00000014747	1 retrocopy	retro_tsyr_1589,