RetrogeneDB ID: retro_nleu_1626

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397301.1:12661507..12662313(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CPM
• Ensembl ID: ENSNLEG00000003782
• Aliases: None
• Description: None

Sequence

>retro_nleu_1626
CTGGCAGTCACAAAGTGGCTGCAAATGGAGTCATTTGTCTTCTCTGAAAACCGTGGTGGTGGTTTGGTAGCCAGTTTTCT
GTTTGATAATGGTGTTCCAGCAGCTTGGGCATTATTTTCCTGGAGCTCAATTCCTAATGATGATGTTTTCCAATTTCTTG
CATATATCTATGATTCAACAAATCTCAACATGAAGAAAGGTCAGCAAAAAGCCAAAATGAAGTTTCTTAATGGAGTTACA
AATGAATACTCTTGGTATCTACTCCCAGGTAGAATGCTAGAGTATAATAACTACATCTGGGCCCAGTGTTTTAAAATTGT
ATTAAAGCTGTCATGCTGTAAATATCCTTGCAAAGGCAAGCACCTATTCCTGTGGAATTATAACAAAGCCTCATTACTTG
AATATATAAAACAGGTGCAGCTAGGTGTAAAGGGTCAAGTTTTTTTTATCAGAATGGAAATCGGCTACCCAATGTGACTG
TGAGAGTCCCAGACAGAAAACATATCTGCACTTAGAGGATCAACAAATTTGGAGCCTATTATCTGGTTCTTTTATCTGGG
TCCGATATAGTACATGTTATAGTCCTTGAACTTCAGCATCTCATAAAGGTAATTATACCAGAGAAATCACAGAACATCAG
TGCTCTTAAGAAGGATACTTTATTTCCATTCCAAGGGCAACTGGACTTTATCCCACTACAAAATCTTTTATACCCTATGA
TTTTTCTATGCAGAAAGTTGCCAAGCCACTCAACTGTAACAAAGCATAGTGTTACTATTTTTAGTGACTCTTTTGCACAT
ATTTTT

Alignment

ORF - retro_nleu_1626 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.9 %
• Parental protein coverage: 67.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VAVMKWLKTETFVLSANLHGGALVASYPFDNGVQATGALYSRSLTPDDDVFQYLAHTYASRNPNMKKGDE
          .AV.KWL..E.FV.S.N..GG.LVAS..FDNGV.A..AL.S.S..P.DDVFQ.LA..Y.S.N.NMKKG..
Retrocopy LAVTKWLQMESFVFSEN-RGGGLVASFLFDNGVPAAWALFSWSSIPNDDVFQFLAYIYDSTNLNMKKGQQ

Parental  CKNKMNFPNGVTNGYSWYPLQGGMQDYN-YIWAQCFEITLELSCCKYPREEKLPSFWNNNKASLIEYIKQ
          .K.KM.F.NGVTN.YSWY.L.G.M..YN.YIWAQCF.I.L.LSCCKYP...K....WN.NKASL.EYIKQ
Retrocopy -KAKMKFLNGVTNEYSWYLLPGRMLEYNNYIWAQCFKIVLKLSCCKYPCKGKHLFLWNYNKASLLEYIKQ

Parental  VHLGV-KGQVFD-QNGNPLPNVIVEVQDRKHICPYRTNKYGEYYLLLLPGSYIINITVPGYDPHLTKVII
          V.LGV.KG.....QNGN.LPNV.V.V.DRKHIC..R.NK.G.YYL.LL.GS.I....V.....HL.KVII
Retrocopy VQLGV<KGSXXXXQNGNRLPNVTVRVPDRKHICT*RINKFGAYYLVLLSGSDIVHVIVLELQ-HLIKVII

Parental  PEKSQNFSALKKDILLPFQEQLDSIPVSNPSCPMIPLYRNLPDHSAATKPSLFLFLVSLLHIF
          PEKSQN.SALKKD.L.PFQ.QLD.IP..N...PMI.L.R.LP.HS..TK.S...F..S..HIF
Retrocopy PEKSQNISALKKDTLFPFQGQLDFIPLQNLLYPMIFLCRKLPSHSTVTKHSVTIFSDSFAHIF

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_1626 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000003782	1 retrocopy	retro_nleu_1626 ,