RetrogeneDB ID: retro_nleu_2132

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397330.1:11090324..11090617(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C4ORF34
• Ensembl ID: ENSNLEG00000017113
• Aliases: None
• Description: None

Sequence

>retro_nleu_2132
ATGGCAGAAAGTGGGCTTCATCCTTATGAATATGTTTGTTCTCATGAATATGCGATGAGAAGGCTGACCAGTCTGTTGTG
GCAGCCCCAACTCTGCTACACAGAGACAGATGCCTGCAAGAATGACCAGGACCCTGTGATGATAATGGCATCAGCGCTAC
TATGATCTTGATGGCCTGACTGGTGACTGCAGTGATCTTGTTCCTCCTGAGACCTCCTAATCGAAGAGGATCCAACGTAT
CTGAAAAGCCAACCAGTCCTCATAATGAACAAGATCCACTTGCTCCTCCTGTG

Alignment

ORF - retro_nleu_2132 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.69 %
• Parental protein coverage: 98.99 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAEGGFDPCECVCSHEHAMRRLINLLRQSQSYCTDTE-CLQELPGPSGDNGISVTMILVAWMVIALILFL
          MAE.G..P.E.VCSHE.AMRRL..LL.Q.Q...T.T..CLQE.PGP..DNGIS.TMIL.A..V.A.ILFL
Retrocopy MAESGLHPYEYVCSHEYAMRRLTSLLWQPQLCYTETD<CLQE*PGPCDDNGISATMILMA*LVTAVILFL

Parental  LRPPNLRGSNLPGKPTSPHNGQDPPAPPV
          LRPPN.RGSN...KPTSPHN.QDP.APPV
Retrocopy LRPPNRRGSNVSEKPTSPHNEQDPLAPPV

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_2132 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.

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000023287	1 retrocopy	retro_cfam_2156,
Dipodomys ordii	ENSDORG00000001693	2 retrocopies	retro_dord_468, retro_dord_570,
Homo sapiens	ENSG00000163683	1 retrocopy	retro_hsap_3836,
Loxodonta africana	ENSLAFG00000002601	2 retrocopies	retro_lafr_1038, retro_lafr_158,
Mustela putorius furo	ENSMPUG00000006076	1 retrocopy	retro_mputfur_641,
Nomascus leucogenys	ENSNLEG00000017113	1 retrocopy	retro_nleu_2132 ,
Otolemur garnettii	ENSOGAG00000007152	4 retrocopies	retro_ogar_1971, retro_ogar_3123, retro_ogar_3370, retro_ogar_740,