RetrogeneDB ID: retro_nleu_3069

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397753.1:59755..60066(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IGJ
• Ensembl ID: ENSNLEG00000007714
• Aliases: None
• Description: None

Sequence

>retro_nleu_3069
ATAAAGAACTATCTTCTTTTCTGGACAGTCCAGGCCATTTTTGTTAAGTCTGTTCTTGTGATATCAAGATGAAGATGAGA
GGATCATTCTTGTTGATGACAAATGTAAGTGGGCCCATGTTATTTTCACCATCATCTCTTCTACCAAAGATCCTAATGAG
GACATTGTGGAGAGAAACATCCAAATTGCTATTCTCCTGGACAACAAGAAGAATATATCTGATCCCATCTCGAGGTTGAG
AACAAAATTTGTGTACCATTTGTCGTACCTCTGTAAAAAAATGTGATCCTACAGAAGTGGAACGGGATAAT

Alignment

ORF - retro_nleu_3069 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.62 %
• Parental protein coverage: 64.78 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MKNRLLFWGVLAIFVKAVHVKAQ-EDERIVLVDNKCKCARITSRIIHSSEDPNEDIVERNIRIIVPLNNR
          .KN.LLFW.V.AIFVK.V.V....EDERI.LVD.KCK.A.....II.S..DPNEDIVERNI.I...L.N.
Retrocopy IKNYLLFWTVQAIFVKSVLVISR>EDERIILVDDKCKWAHVIFTIISSTKDPNEDIVERNIQIAILLDNK

Parental  ENISDPTSPLRTRFVYHLSDLC-KKCDPTEVELDN
          .NISDP.S.LRT.FVYHLS.LC.KKCDPTEVE.DN
Retrocopy KNISDPISRLRTKFVYHLSYLC>KKCDPTEVERDN

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_3069 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014618	1 retrocopy	retro_cjac_1466,
Homo sapiens	ENSG00000132465	1 retrocopy	retro_hsap_4086,
Macaca mulatta	ENSMMUG00000022096	1 retrocopy	retro_mmul_2300,
Nomascus leucogenys	ENSNLEG00000007714	1 retrocopy	retro_nleu_3069 ,
Pongo abelii	ENSPPYG00000014809	1 retrocopy	retro_pabe_3272,
Pan troglodytes	ENSPTRG00000016134	1 retrocopy	retro_ptro_2771,