RetrogeneDB ID: retro_nleu_2493

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397361.1:6983637..6984317(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000009890
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NUDT21
• Ensembl ID: ENSNLEG00000001963
• Aliases: None
• Description: None

Sequence

>retro_nleu_2493
ATGTCTGTGGTACCACCCAATCGCTCGCAGACCGGCTGGCCCCGGGGGTCACTCAGTTCGGCAACAAGTACATCCAGCAG
ACCAAGCCCCTCACCCTGGAGCGCATCATCAACCTGTACCCTCTTACCAATTAAACTTTTGGTACAAAAGAGCCCCTCTA
CGAGAAGGACAGCTCTGTTGCAGCCAGATTTCAGCGCATGAGGGAAGAATTTGATAAAATTGGAATGAGGATGACTGTAG
AAGGGGTTCTGATTGTACATGAGCACCGGCTACCCCATGTGTTACTGCTGCAGCTGGGAACAACTTTCTTCAAACTACCT
GGTGGTGAACTTAACCGAGGAGAAGATGAAGTTGAAGGACTAAAATGCTTAATGACAGAGATACTGGGTCGTCAGGATGG
AGTTTTGCAAGACTGGGTCATTGATGGCTGCATTGGTAGCTGGTGGAGACCAAATTTTGAACCCCCTCAGTATCCATATA
TTCCTGCACATATTACAAAGCCTAAGGAACATAAGAAGTTGTTTCTGGTTCAGCTTCAAGAAAAAGCCTTGTTTGCAGTC
CCTAAAAATTACAAGCTGGTAGCTGCACCATTGTTTGAATTGTATGACAATGCACCAGGATATGGACCCATCATTTCTAG
TCTCCCTCAGCTGTTGAGAAGGTTCAATTTTATATACAAC

Alignment

ORF - retro_nleu_2493 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.05 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSVVPPNRSQTGWPRG-VTQFGNKYIQQTKPLTLERTINLYPLTNYTFGTKEPLYEKDSSVAARFQRMRE
          MSVVPPNRSQTGWPRG.VTQFGNKYIQQTKPLTLER.INLYPLTN.TFGTKEPLYEKDSSVAARFQRMRE
Retrocopy MSVVPPNRSQTGWPRG<VTQFGNKYIQQTKPLTLERIINLYPLTN*TFGTKEPLYEKDSSVAARFQRMRE

Parental  EFDKIGMRRTVEGVLIVHEHRLPHVLLLQLGTTFFKLPGGELNPGEDEVEGLKRLMTEILGRQDGVLQDW
          EFDKIGMR.TVEGVLIVHEHRLPHVLLLQLGTTFFKLPGGELN.GEDEVEGLK.LMTEILGRQDGVLQDW
Retrocopy EFDKIGMRMTVEGVLIVHEHRLPHVLLLQLGTTFFKLPGGELNRGEDEVEGLKCLMTEILGRQDGVLQDW

Parental  VIDDCIGNWWRPNFEPPQYPYIPAHITKPKEHKKLFLVQLQEKALFAVPKNYKLVAAPLFELYDNAPGYG
          VID.CIG.WWRPNFEPPQYPYIPAHITKPKEHKKLFLVQLQEKALFAVPKNYKLVAAPLFELYDNAPGYG
Retrocopy VIDGCIGSWWRPNFEPPQYPYIPAHITKPKEHKKLFLVQLQEKALFAVPKNYKLVAAPLFELYDNAPGYG

Parental  PIISSLPQLLSRFNFIYN
          PIISSLPQLL.RFNFIYN
Retrocopy PIISSLPQLLRRFNFIYN

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_2493 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 8 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000010207	2 retrocopies	retro_btau_1655, retro_btau_937,
Callithrix jacchus	ENSCJAG00000012724	3 retrocopies	retro_cjac_1121, retro_cjac_2211, retro_cjac_4100,
Loxodonta africana	ENSLAFG00000028465	1 retrocopy	retro_lafr_610,
Mustela putorius furo	ENSMPUG00000003451	1 retrocopy	retro_mputfur_158,
Nomascus leucogenys	ENSNLEG00000001963	2 retrocopies	retro_nleu_1477, retro_nleu_2493 ,
Oryctolagus cuniculus	ENSOCUG00000017224	2 retrocopies	retro_ocun_154, retro_ocun_87,
Sorex araneus	ENSSARG00000006493	2 retrocopies	retro_sara_161, retro_sara_580,
Sus scrofa	ENSSSCG00000029848	2 retrocopies	retro_sscr_117, retro_sscr_185,