RetrogeneDB ID: retro_nleu_2414

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397353.1:6231620..6232010(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C12ORF45
• Ensembl ID: ENSNLEG00000006584
• Aliases: None
• Description: None

Sequence

>retro_nleu_2414
GCTCAAGCTCTGTGCTGTCCACCCACGACTGCTACAGAGGGAGTCTTGGTGCCTAAGGAGTGGCTGATGGTAGGGAACAA
CAGCCAAGGAGGTATATCAGACAGGTTGCTCATCAACTCCCAGCCTGATTCTAGAAAGAACTCCACTCTCCAACCAGTCC
AGATACAGAGGAGTCCCTTAGTGGACCAAGGACAGACCTTTCTCCCACAGATGGCCCAGGCACGTGAAAAGCTAAGAAAA
TAAATGGCGGGTTCACCACCTGGTTGTTTCAATATTGAAAATATTGATGGTTCTCTTAGAAAAGTTATACAAATGGATGT
GGTCTTGTTTGAGATGAACCAGTCGGATTCAAAAGTGGACAGTTCAGAATCTGAGGATGAAGATGACAGC

Alignment

ORF - retro_nleu_2414 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.18 %
• Parental protein coverage: 70.81 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ASPSCSSPTRDSSGVPVSKELLTAGSDGRGGIWDRLLINSQPKSRKTSTLQTVRIERSPLLDQVQTFLPQ
          A...C..PT....GV.V.KE.L..G....GGI.DRLLINSQP.SRK.STLQ.V.I.RSPL.DQ.QTFLPQ
Retrocopy AQALCCPPTTATEGVLVPKEWLMVGNNSQGGISDRLLINSQPDSRKNSTLQPVQIQRSPLVDQGQTFLPQ

Parental  MARANEKLRKEMAAAPPGRFNIENIDGPHGKVIQMDVALFEMNQSDSKEADSSEESSQDSS
          MA.A.EKLRK.MA..PPG.FNIENIDG...KVIQMDV.LFEMNQSDSK..DSSE....D.S
Retrocopy MAQAREKLRK*MAGSPPGCFNIENIDGSLRKVIQMDVVLFEMNQSDSK-VDSSESEDEDDS

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_2414 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.

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014728	1 retrocopy	retro_cjac_333,
Dasypus novemcinctus	ENSDNOG00000017235	1 retrocopy	retro_dnov_2327,
Homo sapiens	ENSG00000151131	1 retrocopy	retro_hsap_292,
Gallus gallus	ENSGALG00000012694	1 retrocopy	retro_ggal_15,
Gorilla gorilla	ENSGGOG00000027272	1 retrocopy	retro_ggor_331,
Macaca mulatta	ENSMMUG00000017133	1 retrocopy	retro_mmul_551,
Nomascus leucogenys	ENSNLEG00000006584	1 retrocopy	retro_nleu_2414 ,
Pongo abelii	ENSPPYG00000004897	1 retrocopy	retro_pabe_382,
Pan troglodytes	ENSPTRG00000005381	1 retrocopy	retro_ptro_240,
Sus scrofa	ENSSSCG00000027792	2 retrocopies	retro_sscr_105, retro_sscr_153,
Tursiops truncatus	ENSTTRG00000005714	1 retrocopy	retro_ttru_1381,