RetrogeneDB ID: retro_nleu_2779

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397427.1:1489664..1490149(-)
• Located in intron of: ENSNLEG00000011074

Retrocopy information

• Ensembl ID: ENSNLEG00000011100
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SARNP
• Ensembl ID: ENSNLEG00000017599
• Aliases: None
• Description: None

Sequence

>retro_nleu_2779
ATGGTAACTGAGATGGTGGAGCTCCATAAGCTGAAGCTTGCTGAACTAAATCAAGAATGTCTTGCTTGTGGTTTGGAGAC
CAAGGGAATAAAGCAAGATCTTATCCACAGACTCCAGGCATATCTTGAAGAACACGCTGAAGAGGAGGCATATGAAGATG
TACTAGGAGATGAAACAGAAGAAGAAACAAACCTCTTGTCAAATAGGAAGAACCCCCTGAAAAAAACTGTTGATGTGGCA
GCAGAGAAGAAAGTGGTGAAAATTACATCTGAAATACCACAGGCTGAGAGAATGCAGAGGAGGGCTGAACGATTCAATGT
ATCTGTGAGCTTGGAGAGTAAGAAAGCTGCTCAGGCAGCTAGGTTTGGGATTTCTTCAGTTCCAACAGAAGTCTGTCATC
TGATAACAAACCTACAGTTAACTTGGATAAGCCGAAGGAAAGAGCTCAAAGATTTGGTTTGAATGTCTCTTCGATCTCCA
GAAAG

Alignment

ORF - retro_nleu_2779 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.47 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MATETVELHKLKLAELKQECLARGLETKGIKQDLIHRLQAYLEEHAEEEANEEDVLGDETEEEET-KPIE
          M.TE.VELHKLKLAEL.QECLA.GLETKGIKQDLIHRLQAYLEEHAEEEA.E.DVLGDETE.EET.KP..
Retrocopy MVTEMVELHKLKLAELNQECLACGLETKGIKQDLIHRLQAYLEEHAEEEAYE-DVLGDETE-EET<KPL-

Parental  LPVKEEEPPE-KTVDVAAEKKVVKITSEIPQTERMQKRAERFNVPVSLESKKAARAARFGISSVPT-KGL
          ..VK.EEPPE.KTVDVAAEKKVVKITSEIPQ.ERMQ.RAERFNV.VSLESKKAA.AARFGISSVPT...L
Retrocopy --VK*EEPPE>KTVDVAAEKKVVKITSEIPQAERMQRRAERFNVSVSLESKKAAQAARFGISSVPT<RSL

Parental  SSDNKPMVNLDKLKERAQRFGLNVSSISRK
          SSDNKP.VNLDK.KERAQRFGLNVSSISRK
Retrocopy SSDNKPTVNLDKPKERAQRFGLNVSSISRK

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_2779 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 18 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011769	2 retrocopies	retro_amel_1602, retro_amel_347,
Bos taurus	ENSBTAG00000020662	1 retrocopy	retro_btau_202,
Callithrix jacchus	ENSCJAG00000007853	8 retrocopies	retro_cjac_1070, retro_cjac_1487, retro_cjac_1801, retro_cjac_2439, retro_cjac_2560, retro_cjac_389, retro_cjac_4139, retro_cjac_731,
Cavia porcellus	ENSCPOG00000011755	1 retrocopy	retro_cpor_1313,
Dipodomys ordii	ENSDORG00000001065	1 retrocopy	retro_dord_80,
Erinaceus europaeus	ENSEEUG00000015176	1 retrocopy	retro_eeur_549,
Homo sapiens	ENSG00000205323	1 retrocopy	retro_hsap_3882,
Gorilla gorilla	ENSGGOG00000013217	2 retrocopies	retro_ggor_2613, retro_ggor_2753,
Loxodonta africana	ENSLAFG00000015053	1 retrocopy	retro_lafr_1024,
Microcebus murinus	ENSMICG00000010902	1 retrocopy	retro_mmur_358,
Monodelphis domestica	ENSMODG00000028949	1 retrocopy	retro_mdom_1909,
Mustela putorius furo	ENSMPUG00000000885	1 retrocopy	retro_mputfur_617,
Mus musculus	ENSMUSG00000078427	1 retrocopy	retro_mmus_54,
Nomascus leucogenys	ENSNLEG00000017599	2 retrocopies	retro_nleu_2779 , retro_nleu_569,
Procavia capensis	ENSPCAG00000009477	2 retrocopies	retro_pcap_262, retro_pcap_45,
Pongo abelii	ENSPPYG00000004630	2 retrocopies	retro_pabe_3116, retro_pabe_3358,
Pan troglodytes	ENSPTRG00000029747	2 retrocopies	retro_ptro_2644, retro_ptro_2782,
Rattus norvegicus	ENSRNOG00000030520	2 retrocopies	retro_rnor_1326, retro_rnor_471,