RetrogeneDB ID: retro_nleu_643

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397269.1:23320210..23320889(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FECH
• Ensembl ID: ENSNLEG00000008062
• Aliases: None
• Description: Ferrochelatase [Source:UniProtKB/TrEMBL;Acc:G1R9G4]

Sequence

>retro_nleu_643
AGGCTGCTGGATGACTTGTCCCCCTACATAGCCCCTCACAAATACTTTATTGGATTTTGGCATCTCCATTCTTTACCAAA
AGAAGCAAATGAAGAGATGGAGAGAGATGGCCTGGAAAGGGCTATTGCTTTCATGCGGCATCCACAGTATGGTTGCCGTA
CCACAGGTGGCAGCTTAAATGCCATTTAAAGATCCTATAATAGAGTGGGACAGAAGCTTATAATGAAGTGGAGCACTATC
GGTAGGTGGCCCACACATCGCCTCCTCACCCACTGCTTTGTTGACCACATTCTGAAAGAGCTGGACCATTTTCCACTGGA
GAAGAGAAGCGAGTCGGCCATTCTCTTTTCTGCTCGCTCACTGCCAATATCCGTGATCAACAGAGGAGACCCCTATTCTC
AGGAGTTAAGTGCCACTATCCAAAGAGTCATAGAAAGGCTGGGTTACTGCAACCCTTACCAGCTGGTGTGAGAATCCAAG
GTTGGTTCAATGCCCTGGTTGGGTCTTCAAACAGATGAAATCTATCAGAGGGCTTTCTGAGAGGGGGAAGAAGAATATCC
TCTCAGTTTTGATAGCATTTACCAATGATAACATCAAAATGCTGTAGAAACTGGATATCGAGTACTCTCAAGTTTTAGAC
AATGAGTGTGGAGTTGAAAACATCAGAAGAGCAGCCTCT

Alignment

ORF - retro_nleu_643 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.57 %
• Parental protein coverage: 53.43 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KLLDELSSNTAPHKYYIGFRYVHPLTEEAIEEMERDGLERAIAFTQYPQYSCSTTGSSLNAIYRYYNQVG
          .LLD.LS...APHKY.IGF...H.L..EA.EEMERDGLERAIAF...PQY.C.TTG.SLNAI.R.YN.VG
Retrocopy RLLDDLSPYIAPHKYFIGFWHLHSLPKEANEEMERDGLERAIAFMRHPQYGCRTTGGSLNAI*RSYNRVG

Parental  RKPTMKWSTIDRWPTHHLLIQCFADHILKELDHFPLEKRSEVVILFSAHSLPMSVVNRGDPYPQEVSATV
          .K..MKWSTI.RWPTH.LL..CF.DHILKELDHFPLEKRSE..ILFSA.SLP.SV.NRGDPY.QE.SAT.
Retrocopy QKLIMKWSTIGRWPTHRLLTHCFVDHILKELDHFPLEKRSESAILFSARSLPISVINRGDPYSQELSATI

Parental  QKVMERLGYCNPYRLVWQSKVGPMPWLGPQTDE-SIKGLCERGRKNILLVPIAFTSDHIETLYELDIEYS
          Q.V.ERLGYCNPY.LV..SKVG.MPWLG.QTDE.SI.GL.ERG.KNIL.V.IAFT.D.I..L..LDIEYS
Retrocopy QRVIERLGYCNPYQLV*ESKVGSMPWLGLQTDE>SIRGLSERGKKNILSVLIAFTNDNIKML*KLDIEYS

Parental  QVLAKECGVENIRRAES
          QVL..ECGVENIRRA.S
Retrocopy QVLDNECGVENIRRAAS

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_643 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003873	1 retrocopy	retro_cjac_4008,
Homo sapiens	ENSG00000066926	1 retrocopy	retro_hsap_2631,
Gorilla gorilla	ENSGGOG00000005554	1 retrocopy	retro_ggor_1841,
Macaca mulatta	ENSMMUG00000022568	1 retrocopy	retro_mmul_1485,
Nomascus leucogenys	ENSNLEG00000008062	1 retrocopy	retro_nleu_643 ,
Oryctolagus cuniculus	ENSOCUG00000003020	1 retrocopy	retro_ocun_497,
Pongo abelii	ENSPPYG00000009182	1 retrocopy	retro_pabe_2332,
Pan troglodytes	ENSPTRG00000010045	1 retrocopy	retro_ptro_1776,