RetrogeneDB ID: retro_nleu_2713

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397405.1:2743935..2744468(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000218940
• Ensembl ID: ENSNLEG00000016858
• Aliases: None
• Description: None

Sequence

>retro_nleu_2713
TGTGCCAATGGCCATGTGGAAGTGGTCACTCTCCAGGTAAACCGAAAATGTCAGACTGACATTGGTGACAAATGAAACAG
GATACCTTTGATGAAGGCTGTACATTGCTAAGAAGAGATTTGTGTCATCATTCTGCTAGAACGTGGCACCAATCCAGATC
TTATGGATGCCTACAGCAACAACACACTACACTATGCTATCTACAATGAGAATACACTACTGGCAGAAAAACTGCCTTCA
CACCATGTGAATACTGAAGTGCTGAACAAGGATGGAAACACACCACTTTTACTTGCTATAGTTTGCAAAACGCAGCAAAA
GGTGGAATTTTAGTGAAGAAACAAGCAAATGTACATGCTGTTGATAGGTTGAAAAGAACAGCTCTCATGCCTGTTGTACA
TTATGGCTTGTCAGGTATAGTTAGCATTCTTCTTCAGCAAAATATTGTCTTTACTCAAGAGTATGTATGAACAGACTGCA
GATTATGCTATTTCTGGTGGTCTGACAAGCACTCACGACAAATTTTGCAACAT

Alignment

ORF - retro_nleu_2713 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.83 %
• Parental protein coverage: 68.18 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  CAHGHVEVVTLLLGRRCQIDVCDRLSRTPLMKAIHCQEEACAIILLEHDASPNIKDIYGNTAVHYAVYNT
          CA.GHVEVVTL...R.CQ.D..D...R.PLMKA.HC.EE.C.IILLE....P...D.Y.N...HYA.YN.
Retrocopy CANGHVEVVTLQVNRKCQTDIGDK*NRIPLMKAVHC*EEICVIILLERGTNPDLMDAYSNNTLHYAIYNE

Parental  GTSLAEKLLSHRANIEALKKEGNTPLLFAINSGRQHMVEF-LLKNQANVHAVDNFRRTALMLAVQHSSSN
          .T.LAEKL.SH..N.E.L.K.GNTPLL.AI....Q..VEF.L.K.QANVHAVD...RTALM..V....S.
Retrocopy NTLLAEKLPSHHVNTEVLNKDGNTPLLLAIVCKTQQKVEF<LVKKQANVHAVDRLKRTALMPVVHYGLSG

Parental  IISLLLQQNINIFSQD-MFGQTAEDYAVCCDLRSI-QQQILEH
          I.S.LLQQNI..F.Q..M..QTA.DYA....L.S....QIL.H
Retrocopy IVSILLQQNI-VFTQE>MYEQTA-DYAISGGLTST<SRQILQH

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_2713 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000008211	2 retrocopies	retro_cjac_2331, retro_cjac_2672,
Microcebus murinus	ENSMICG00000017899	2 retrocopies	retro_mmur_1151, retro_mmur_246,
Macaca mulatta	ENSMMUG00000008983	1 retrocopy	retro_mmul_1761,
Nomascus leucogenys	ENSNLEG00000016858	1 retrocopy	retro_nleu_2713 ,
Tupaia belangeri	ENSTBEG00000017150	1 retrocopy	retro_tbel_490,