RetrogeneDB ID: retro_nleu_2410

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397353.1:2130414..2130849(+)
• Located in intron of: ENSNLEG00000013319

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000027034
• Aliases: None
• Description: None

Sequence

>retro_nleu_2410
GTGGCCAGCAATTCTGTAAAGGAGAGGAACCCTGGGGTGTCATGACAGTAGGAATCAATGTTATAAAAAAGGTAACAACT
TGATACCCTCGCATTGTGATTAAAGAACCCGCCAGTATTAGCCCAAGAAGAATATACAAACATAAAAATGTGATCATTTC
TGCTAGGATTTTGATTCTGTTCTTCTGAGTGCCAAATTCTCAGATATTACAGAAGAGATTCTGGGGCAAGCCTACAGAGG
CCTCAACAGAAGCAAGAGTGCAAGAATATGGATAACTAAATGCTACAGATTACATTTCAGGAGGGGGAATTCTGAAGTCA
AGAAAGAGAATGTTGTGAACCGTGATGAAGGGTGGGGAAGTACCAGTCCTGAGGAGGAGGGAGATGCCCATGGTGGGTTG
GTTGACATGTGCCACTCTTCTGTGAAGAACAGCAG

Alignment

ORF - retro_nleu_2410 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.64 %
• Parental protein coverage: 68.52 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VANNFVTDKNSGE-VMTVGINAIKEITARCPLAMTEELLQDLAQYKTHKDKNVMMSARTLIQLFRTLNPQ
          VA.N.V...N.G..VMTVGIN.IK..T...P.....E...........K.KNV..SAR.LI..F...N.Q
Retrocopy VASNSVKERNPGV<VMTVGINVIKKVTT*YPRIVIKEPAS-ISPRRIYKHKNVIISARILILFF*VPNSQ

Parental  MLQKKFRGKPTEASIEARVQEYGELDAKDYIPGAEVL-EVEKEENAENDEEGWESTSISEEEDADGEWID
          .LQK.F.GKPTEAS.EARVQEYG.L.A.DYI.G...L.EV.K.EN..N..EGW.STS..EE.DA.G...D
Retrocopy ILQKRFWGKPTEASTEARVQEYG*LNATDYISGGGIL<EV-KKENVVNRDEGWGSTSPEEEGDAHGGLVD

Parental  VFHSS-DEEQQ
          ..HSS..EEQQ
Retrocopy MCHSS<CEEQQ

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_2410 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 15 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008521	2 retrocopies	retro_cfam_1211, retro_cfam_515,
Cavia porcellus	ENSCPOG00000008524	2 retrocopies	retro_cpor_510, retro_cpor_994,
Echinops telfairi	ENSETEG00000004811	2 retrocopies	retro_etel_1946, retro_etel_779,
Homo sapiens	ENSG00000198301	2 retrocopies	retro_hsap_2412, retro_hsap_4030,
Gorilla gorilla	ENSGGOG00000006441	1 retrocopy	retro_ggor_1498,
Loxodonta africana	ENSLAFG00000012217	1 retrocopy	retro_lafr_980,
Microcebus murinus	ENSMICG00000006682	1 retrocopy	retro_mmur_1204,
Macaca mulatta	ENSMMUG00000017503	1 retrocopy	retro_mmul_604,
Nomascus leucogenys	ENSNLEG00000027034	1 retrocopy	retro_nleu_2410 ,
Oryctolagus cuniculus	ENSOCUG00000026953	1 retrocopy	retro_ocun_547,
Pongo abelii	ENSPPYG00000014852	1 retrocopy	retro_pabe_1777,
Pan troglodytes	ENSPTRG00000024399	2 retrocopies	retro_ptro_1388, retro_ptro_2732,
Rattus norvegicus	ENSRNOG00000022229	2 retrocopies	retro_rnor_1381, retro_rnor_1967,
Sus scrofa	ENSSSCG00000008974	1 retrocopy	retro_sscr_571,
Tupaia belangeri	ENSTBEG00000005270	1 retrocopy	retro_tbel_2414,