RetrogeneDB ID: retro_ggor_2459

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:111172196..111172847(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTM1
• Ensembl ID: ENSGGOG00000005148
• Aliases: None
• Description: None

Sequence

>retro_ggor_2459
ATGCCCGTGACACTGGGGTACTGGGACATCTGAGGGCTGGCCCATGCCGTCTGCCTGCTCCTGCAATACACAGACTTAAG
CTATGAGGAAAAGAAGTACATGATGGGGGACGCTCCTGACTATGACAGAAGCCAGTGGCTGAATGAAAAATTCAAACTGG
GCCTGGACTTTCCCAATCTGCCCTACTTGATTGATGGGGCTCACAAGATCACCCAGAGCAAGGCCATCTGGGGCTGCATT
GCCTACAAGCACAATCTGTGTGGGGAGACAGAAGGGGAGAAGATTTGGGAAGACATTTTGGAGAACCAGCTTGCGGACAA
CCACGTGCAGCTGGCCAGACTCTGCTACAACCCAGATTTTAAGAAACTGAAGGCAGAATACCTGGAGGCACTCCCTGCAA
TGCTGAAGCTGTACTCACAGTTTCTGGGGAAGCAGCCATGGTTTCTTGGGGACAAGATCACACTTGTGGATTTCATCATG
TATGGAGTCCTTGAGAGAAACCAAGTATTTGGGCCCAAGTGGTTGGACGCCTTCCCATACCTGAAGGACTTCATCTCCCG
ATTTGAGGGCTTGGAGATCTCTGCCTACATGAAATCCAGCTGCTTCCTCCCGAGACCTGTGTTCACAAAGATGGCTGTCA
GGGGCAACAAG

Alignment

ORF - retro_ggor_2459 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.98 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSMTLGYWDIRGLAHSIRLLLEYTDSSYEEKKYTMGDAPDYDRSQWLNEKFKLGLDFPNLPYLIDGAHKI
          M..TLGYWDI.GLAH...LLL.YTD.SYEEKKY.MGDAPDYDRSQWLNEKFKLGLDFPNLPYLIDGAHKI
Retrocopy MPVTLGYWDI*GLAHAVCLLLQYTDLSYEEKKYMMGDAPDYDRSQWLNEKFKLGLDFPNLPYLIDGAHKI

Parental  TQSNAILCYIARKHNLCGETEEEKIRVDILENQTMDNHMQLGMICYNPEFEKLKPKYLEELPEKLKLYSE
          TQS.AI...IA.KHNLCGETE.EKI..DILENQ..DNH.QL...CYNP.F.KLK..YLE.LP..LKLYS.
Retrocopy TQSKAIWGCIAYKHNLCGETEGEKIWEDILENQLADNHVQLARLCYNPDFKKLKAEYLEALPAMLKLYSQ

Parental  FLGKRPWFAGDKITFVDFLVYDVLDLHRIFEPKCLDAFPNLKDFISRFEGLEKISAYMKSSRFLPRPVFT
          FLGK.PWF.GDKIT.VDF..Y.VL.....F.PK.LDAFP.LKDFISRFEGLE.ISAYMKSS.FLPRPVFT
Retrocopy FLGKQPWFLGDKITLVDFIMYGVLERNQVFGPKWLDAFPYLKDFISRFEGLE-ISAYMKSSCFLPRPVFT

Parental  KMAVWGNK
          KMAV.GNK
Retrocopy KMAVRGNK

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	0.67 RPM	86.17 RPM
SRP007412_cerebellum	0.59 RPM	106.41 RPM
SRP007412_heart	0.00 RPM	17.26 RPM
SRP007412_kidney	0.16 RPM	42.73 RPM
SRP007412_liver	0.00 RPM	147.64 RPM
SRP007412_testis	0.31 RPM	314.32 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_2459 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2459 has 5 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3643
Pan troglodytes	retro_ptro_2468
Pongo abelii	retro_pabe_2990
Macaca mulatta	retro_mmul_1806
Callithrix jacchus	retro_cjac_2463

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003123	7 retrocopies	retro_cjac_1299, retro_cjac_2226, retro_cjac_2463, retro_cjac_2498, retro_cjac_3004, retro_cjac_3084, retro_cjac_811,
Gorilla gorilla	ENSGGOG00000005148	2 retrocopies	retro_ggor_1913, retro_ggor_2459 ,
Nomascus leucogenys	ENSNLEG00000003194	2 retrocopies	retro_nleu_1546, retro_nleu_504,
Pongo abelii	ENSPPYG00000001064	2 retrocopies	retro_pabe_2218, retro_pabe_2990,
Pan troglodytes	ENSPTRG00000001061	2 retrocopies	retro_ptro_1859, retro_ptro_2468,