RetrogeneDB ID: retro_nleu_670

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397269.1:20963414..20963714(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLE4
• Ensembl ID: ENSNLEG00000001111
• Aliases: None
• Description: None

Sequence

>retro_nleu_670
GAGGGGCGACCTAGTGGGGAGGCAGTGGTCCCACAGCCCCAAGCCCCGATGAGAGTGCTTGGGGCTCGTCCCTCAAGGCT
GCCTCCGGCGCCAGCGAAGGCCTTGGCGAAGGCTGACCCCGACGAGACATAGACGGGACAGAGAACAGCCATTCTGGCCT
GAGCCGGGGAACTGTGTGTGGAGACCATTGCAAAAGATGCCTGCTGCTGTGCTCAACAGGGAAACAGCAAAATCCACCAG
AGGAGAGACTGGGATAATGCAATAGAAGCTGTGGATGAATCTGCTTTTCTGGAAGGTACT

Alignment

ORF - retro_nleu_670 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.32 %
• Parental protein coverage: 87.07 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EEGPAGEAAASQPQAPTSAPGARLSRLPLARVKALVKADPDVTLAGQEAIFILARAAELFVETIAKDAYC
          E..P.GEA...QPQAP....GAR.SRLP.A..KAL.KADPD.T..GQ....ILA.A.EL.VETIAKDA.C
Retrocopy EGRPSGEAVVPQPQAPMRVLGARPSRLPPAPAKALAKADPDET*TGQRTA-ILA*AGELCVETIAKDACC

Parental  CAQQGKRKTLQRRDLDNAIEAVDEFAFLEGT
          CAQQG..K..QRRD.DNAIEAVDE.AFLEGT
Retrocopy CAQQGNSKIHQRRDWDNAIEAVDESAFLEGT

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_670 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 11 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017073	1 retrocopy	retro_amel_394,
Callithrix jacchus	ENSCJAG00000017156	1 retrocopy	retro_cjac_1087,
Cavia porcellus	ENSCPOG00000027003	1 retrocopy	retro_cpor_1102,
Felis catus	ENSFCAG00000005983	1 retrocopy	retro_fcat_790,
Homo sapiens	ENSG00000115350	1 retrocopy	retro_hsap_2765,
Gorilla gorilla	ENSGGOG00000004491	1 retrocopy	retro_ggor_1924,
Mustela putorius furo	ENSMPUG00000008356	1 retrocopy	retro_mputfur_305,
Nomascus leucogenys	ENSNLEG00000001111	1 retrocopy	retro_nleu_670 ,
Nomascus leucogenys	ENSNLEG00000012195	2 retrocopies	retro_nleu_2369, retro_nleu_2850,
Pongo abelii	ENSPPYG00000012258	1 retrocopy	retro_pabe_2246,
Pan troglodytes	ENSPTRG00000012105	1 retrocopy	retro_ptro_1872,