RetrogeneDB ID: retro_nleu_2842

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397449.1:1171310..1171781(-)
• Located in intron of: ENSNLEG00000014283

Retrocopy information

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

Parental gene information

• Parental gene symbol: ASNA1
• Ensembl ID: ENSNLEG00000010460
• Aliases: None
• Description: None

Sequence

>retro_nleu_2842
CAGATCAAGAACCAGATCAGCCCCTTTATCTTATAGACATGCAACGTGCTAGGTCTGGGGGACATGAACATAGACCTGTG
TCCTCCATGCTGAAGTAGACACTGTCCATCATCTACTTTGTCAGCAAACAGTTCAAGGGCCCTGAGCAGATTACCTGTAT
CGTCTGCGAATGTATCCCTGAGTTCTATCCCTGTATGAGACAGAGTGACTGATCCAGGAGCTGGCCAAGTACAAGATTGA
CACACACAACATCATCATCACCCAGCTTCTCTTCCCCAACCCTGAAAATCCTGAAAGATATGTGAGGCCTGACACAAGAT
CCAGGCCAAGTATCTGAACCAGATGAAGAATGCTTATAAAGACTTTTGCACTGTGAAACTGCCACTGCTTCCCCATGAGG
TGCAGGGGGCAGACAAAGTCAACACCTTCTCAGCCCTCTTTACAGAACCCTACAAGCCCTGTAGCACCCAG

Alignment

ORF - retro_nleu_2842 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.19 %
• Parental protein coverage: 64.08 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QIKNQISPFISQMCNMLGLGDMNAD-QLASKLEETLPVIRSVSEQFKDPEQTT-FICVCIAEF-LSLYET
          QIKNQISPFI...CN.LGLGDMN.D....S.L..TL..I..VS.QFK.PEQ.T...C.CI.EF.LSLYET
Retrocopy QIKNQISPFIL*TCNVLGLGDMNID<PVSSMLK*TLSIIYFVSKQFKGPEQITCIVCECIPEF<LSLYET

Parental  ERLIQELAKCKIDTHNIIVNQLVFPDPEKPC-KMCEARHKIQAKYLDQMEDLYEDFHIVKLPLLPHEVRG
          E.LIQELAK.KIDTHNII..QL.FP.PE.P..K.CEA.HKIQAKYL.QM...Y.DF..VKLPLLPHEV.G
Retrocopy E*LIQELAKYKIDTHNIIITQLLFPNPENPE<KICEA*HKIQAKYLNQMKNAYKDFCTVKLPLLPHEVQG

Parental  ADKVNTFSALLLEPYKPPSAQ
          ADKVNTFSAL..EPYKP.S.Q
Retrocopy ADKVNTFSALFTEPYKPCSTQ

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_2842 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000005010	1 retrocopy	retro_etel_656,
Nomascus leucogenys	ENSNLEG00000010460	1 retrocopy	retro_nleu_2842 ,
Otolemur garnettii	ENSOGAG00000012205	1 retrocopy	retro_ogar_931,
Pan troglodytes	ENSPTRG00000010537	1 retrocopy	retro_ptro_604,