RetrogeneDB ID: retro_nleu_504

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397266.1:2669063..2669558(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTM1
• Ensembl ID: ENSNLEG00000003194
• Aliases: None
• Description: glutathione S-transferase mu 1 [Source:HGNC Symbol;Acc:4632]

Sequence

>retro_nleu_504
ATGCCCATGACCCTGGGGTACTAAGACATATGAGGGCTGGCCCACGCCATCTGCCTGCTCCTGCAATACACAGACTCAAG
CCATGAGGAAAAGAAGTACACGATGGGGGACGCTCCTTACTATGACAGAAGCCAGTGGCTGAATGAAAAATTCAAGCTGG
TCCTGGACTTTCCCAATCTGCCCTACTTGATTGATGGGGCTCACAAGATCACCCAGAGCAAGGCCATCCTGGGCTGCAAT
GCCTACAAGCACAACCTGTGTGGGGAGACAGAAGGGGAGAAGATTTGGGAAGACATTTTGGAGAATCAGCTTGTGGACAA
CCATGTGCAGCTGGCCAGACTCTGCTACAACCCAGATTTTGAGAAACTGAAGCCAGGATACCTGGAGGCACTCCCTGCAA
TGCTGAAGCTCTACTCACAGTTTCTGGAGAAGCAGCCATGGTTTCTTGGGGACAAGATCACACTTGTGGATTTCATTGCT
TATGGTGTCCTTGAG

Alignment

ORF - retro_nleu_504 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.36 %
• Parental protein coverage: 75.69 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPITLGYWNIRGLAHSIRLLLEYTDSSYEEKKYTMGDAPDYDRSQWLNEKFKLGLDFPNLPYLIDGAHKI
          MP.TLGY..I.GLAH.I.LLL.YTDSS.EEKKYTMGDAP.YDRSQWLNEKFKL.LDFPNLPYLIDGAHKI
Retrocopy MPMTLGY*DI*GLAHAICLLLQYTDSSHEEKKYTMGDAPYYDRSQWLNEKFKLVLDFPNLPYLIDGAHKI

Parental  TQSNAILRYIARKHNLCGETEEEKIRVDILENQTMDNHMQLAMICYNPEFEKLKPKYLEELPEKLKLYSE
          TQS.AIL...A.KHNLCGETE.EKI..DILENQ..DNH.QLA..CYNP.FEKLKP.YLE.LP..LKLYS.
Retrocopy TQSKAILGCNAYKHNLCGETEGEKIWEDILENQLVDNHVQLARLCYNPDFEKLKPGYLEALPAMLKLYSQ

Parental  FLGKRPWFAGNEITFVDFLVYDVLD
          FL.K.PWF.G..IT.VDF..Y.VL.
Retrocopy FLEKQPWFLGDKITLVDFIAYGVLE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_504 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 16 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 ,
Nomascus leucogenys	ENSNLEG00000003302	1 retrocopy	retro_nleu_1895,
Pongo abelii	ENSPPYG00000001064	2 retrocopies	retro_pabe_2218, retro_pabe_2990,
Pan troglodytes	ENSPTRG00000001061	2 retrocopies	retro_ptro_1859, retro_ptro_2468,