RetrogeneDB ID: retro_nleu_2902

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397479.1:972139..973042(+)
• Located in intron of: ENSNLEG00000000123

Retrocopy information

• Ensembl ID: ENSNLEG00000000124
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000007131
• Aliases: None
• Description: None

Sequence

>retro_nleu_2902
GGCGAGGGCCACCACCTGCAGCACATCAGCGACCACGAGATGCCCTAAGATTTAGCTTTGGAGTCAAACCCTTCTGACCA
TCCAAGGGCAAGCACAATTTTCCTGAGCAAATCTCAAACCGATATGTGAGAAAAGAGGAAGAGCAACCATTTAAATCACG
TATCTCCAGGGCAGCTTACTAAAAAGCATAGCTCAGGCTCAACAATATTTCTAGACAACAGAACAGTCAGCCAGCCTAAT
CTTAGAACCACAGTAAAATGTGTGACCTTAGAAATATATTACCACATAAAGAACAGAGATGCAAATAGATCCCTGGGTAT
TTTTGATGAGAGATCACATCCCCTTACACGAGAAAAAGTTCCACAGGAATACTTAAAGCATGATCCTGAGCACAAATTTA
TTTATAGATTTGTTCGTACTCTTTTGAGTGCTGCACAGCTAACAGCTGAATGTGCAACAGTAACTTTGGTTTACTTAGAA
AGGCTTTCAACTTACGCTGAAATCAACATTTGTCCCACTAACTGGAAAAGGATTGTTCTGGGAGCCATTCTTCTTACCTC
CAAGGTTTGGGATGATCAGGCTGTATGGAATGTGGACTATTGCCAGATCCTCAAGGACATTACAGTTGAGGACATGAATG
AAATGGAAAGGCATTTTTCGGAGCTTCTTCAGTTTAATATTAATGTTCCTGCCAGTGTTTATGCCAAGCACTACCTTGAC
CTCTCCTTAGCAGATGATGACAACCTGAATTTTCTATTTGCTCCTCTTAGCAAAGAAAGAGCACAGAACCTAGAGGCTAT
TTATAGATTATGTGAAGACAAAGCCTTGTGTGGAGCAGCTATAAGAAGGTCTTTCAGCGCTGATAACTTCATTGCTATTC
AGCACTCTAAAGCCATTCTCTCT

Alignment

ORF - retro_nleu_2902 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.07 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GRGPHLQHISDREMPEDLALESNPSDHPRASTIFLSKSQTDVREKRKSNHLNHVSPGQLTKKYSSCSTIF
          G.G.HLQHISD.EMP.DLALESNPSDHPRASTIFLSKSQTD..EKRKSNHLNHVSPGQLTKK.SS.STIF
Retrocopy GEGHHLQHISDHEMP*DLALESNPSDHPRASTIFLSKSQTDM*EKRKSNHLNHVSPGQLTKKHSSGSTIF

Parental  LDDSTVSQPNLRTTVKCVTLAIYYHIKNRDANRSLDIFDERSHPLTREKVPEEYFKHDPEHKFIYRFVRT
          LD..TVSQPNLRTTVKCVTL.IYYHIKNRDANRSL.IFDERSHPLTREKVP.EY.KHDPEHKFIYRFVRT
Retrocopy LDNRTVSQPNLRTTVKCVTLEIYYHIKNRDANRSLGIFDERSHPLTREKVPQEYLKHDPEHKFIYRFVRT

Parental  LFSAAQLTAECAIVTLVYLERLLTYAEIDICPTNWKRIVLGAILLASKVWDDQAVWNVDYCQILKDITVE
          L.SAAQLTAECA.VTLVYLERL.TYAEI.ICPTNWKRIVLGAILL.SKVWDDQAVWNVDYCQILKDITVE
Retrocopy LLSAAQLTAECATVTLVYLERLSTYAEINICPTNWKRIVLGAILLTSKVWDDQAVWNVDYCQILKDITVE

Parental  DMNEMERHFLELLQFNINVPASVYAKYYFDLRSLADDNNLNFLFAPLSKERAQNLEAISRLCEDKDLCRA
          DMNEMERHF.ELLQFNINVPASVYAK.Y.DL.SLADD.NLNFLFAPLSKERAQNLEAI.RLCEDK.LC.A
Retrocopy DMNEMERHFSELLQFNINVPASVYAKHYLDL-SLADDDNLNFLFAPLSKERAQNLEAIYRLCEDKALCGA

Parental  AMRRSFSADNFIGIQRSKAILS
          A.RRSFSADNFI.IQ.SKAILS
Retrocopy AIRRSFSADNFIAIQHSKAILS

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_2902 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002901	1 retrocopy	retro_cjac_569,
Homo sapiens	ENSG00000163249	3 retrocopies	retro_hsap_1629, retro_hsap_1984, retro_hsap_4845,
Macaca mulatta	ENSMMUG00000020211	1 retrocopy	retro_mmul_2587,
Mus musculus	ENSMUSG00000070871	1 retrocopy	retro_mmus_3072,
Nomascus leucogenys	ENSNLEG00000007131	3 retrocopies	retro_nleu_1164, retro_nleu_2902 , retro_nleu_430,
Pongo abelii	ENSPPYG00000013118	3 retrocopies	retro_pabe_1345, retro_pabe_3766, retro_pabe_76,