RetrogeneDB ID: retro_nleu_7

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397354.1:5102914..5103784(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000018649
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: PPA1
• Ensembl ID: ENSNLEG00000016098
• Aliases: None
• Description: None

Sequence

>retro_nleu_7
ATGAGTGGCTTCAGCACCGAGGAGCGCGCCGTGCCCTTCTCCCTGGAGTACCAAGTCTTCCTCAAAAATGAGAAAGGACA
ATATATCTCTCCATTTCATGATATTCCAATTTATGCAGATAAGGATGTGTTCCACGTGGTAGTTGAAGTACCACGCTGGT
CTAATGCAAAAATGGAGATTGCTACAAAGGACCCCTTAAACCCCATTAAACAAGATGTGAAAGAAAGAAAACTTCGCTAT
GTTGCAAATTTGTTCCCCTATAAAGGATATATCTGGAACTATGGTGCCATCCCTCAGACTTGGGAAGACCCAGGGCATAA
TGATAAACATACTGGCTGTTGTGGTGACAATGACCCAATTGATGTGTGTGAAATTGGAAGCAAGGTATGTGCAAGAGGTG
AAATAATTGGTGTGAAAGTTCTAGGCATATTGGCTATGGTTGACGAAGGGGAAACCACCTGGAAAGTCATTGCCATTAAT
GTGGATGATCCTGATGCAGCCAATTATAATGATATCAATGATGTCAAACAGCTGAAACCTGGCTACTTAGAAGCTACTGT
GGACTGGTTTAGAAGGTATAAGGTTCCTGATGGAAAACCAGAAAATGAGTTTGCTTTTAATGCAGAATTTAAAGATAAGG
ACTTTGCAATTGATATTATTAAAAGTACTCGTGAACATTGGAAAGCATTAGTGACTAAGAAAACGAATGGAAAAGGAATC
AGTTGCATGAATACAACTGTGTCTGAGAGCCCCTTGAAGTGTGATCCTGATGCTGCCGGAGCCATTGTGGATGCTTTACC
ACCACCCTGTGAATCTGCCTGCACAGTACCAACAGACATGGATAAGTGGTTCCATCACCAGAAAAACTAA

Alignment

ORF - retro_nleu_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.29 %
• Parental protein coverage: 98.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSGFSTEERAAPFSLEYRVFLKNEKGQYISPFHDIPIYADKDVFHMVVEVPRWSNAKMEIATKDPLNPIK
          MSGFSTEERA.PFSLEY.VFLKNEKGQYISPFHDIPIYADKDVFH.VVEVPRWSNAKMEIATKDPLNPIK
Retrocopy MSGFSTEERAVPFSLEYQVFLKNEKGQYISPFHDIPIYADKDVFHVVVEVPRWSNAKMEIATKDPLNPIK

Parental  QDVKKGKLRYVANLFPYKGYIWNYGAIPQTWEDPGHNDKHTGCCGDNDPIDVCEIGSKVCARGEIIGVKV
          QDVK..KLRYVANLFPYKGYIWNYGAIPQTWEDPGHNDKHTGCCGDNDPIDVCEIGSKVCARGEIIGVKV
Retrocopy QDVKERKLRYVANLFPYKGYIWNYGAIPQTWEDPGHNDKHTGCCGDNDPIDVCEIGSKVCARGEIIGVKV

Parental  LGILAMIDEGETDWKVIAINVDDPDAANYNVCNSV
          LGILAM.DEGET.WKVIAINVDDPDAANYN..N.V
Retrocopy LGILAMVDEGETTWKVIAINVDDPDAANYNDINDV

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_7 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 15 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014033	1 retrocopy	retro_cfam_1040,
Cavia porcellus	ENSCPOG00000014023	1 retrocopy	retro_cpor_615,
Dasypus novemcinctus	ENSDNOG00000014861	1 retrocopy	retro_dnov_1310,
Equus caballus	ENSECAG00000018686	1 retrocopy	retro_ecab_691,
Homo sapiens	ENSG00000180817	2 retrocopies	retro_hsap_2756, retro_hsap_3267,
Loxodonta africana	ENSLAFG00000004048	1 retrocopy	retro_lafr_990,
Myotis lucifugus	ENSMLUG00000017790	1 retrocopy	retro_mluc_2469,
Macaca mulatta	ENSMMUG00000006397	1 retrocopy	retro_mmul_1540,
Nomascus leucogenys	ENSNLEG00000016098	1 retrocopy	retro_nleu_7 ,
Oryctolagus cuniculus	ENSOCUG00000016001	2 retrocopies	retro_ocun_1373, retro_ocun_883,
Procavia capensis	ENSPCAG00000006788	1 retrocopy	retro_pcap_247,
Pongo abelii	ENSPPYG00000029405	1 retrocopy	retro_pabe_37,
Pan troglodytes	ENSPTRG00000002585	2 retrocopies	retro_ptro_1864, retro_ptro_2210,
Tupaia belangeri	ENSTBEG00000008947	3 retrocopies	retro_tbel_3560, retro_tbel_3561, retro_tbel_848,
Tarsius syrichta	ENSTSYG00000005511	1 retrocopy	retro_tsyr_1856,