RetrogeneDB ID: retro_nleu_730

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397271.1:9271762..9272109(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ORMDL1
• Ensembl ID: ENSNLEG00000006625
• Aliases: None
• Description: None

Sequence

>retro_nleu_730
GTTGTCTTACGCAGCATTCCTTCTTCCGTGTTCTCATTGCTTAGACCTTAACAAATATTATACATAACCTGGGGATCAAT
GGATTTTTCCATGCTTGAAAGGAGCACCGCTGGAAACCCCTGACCAGGGTAAAGCAAGGCTCCCAAAGCACTGAGAACAA
CTGGGTGATGGAGTACCATTTACATCTTCATGGAAGTGTTTCACCATTTCTCCAATCATTCTGTTTTCCAGCAAGTTTCT
GTAGAAGTATGCTCCAACTCACTCCATCGTAAGCACAGCTTCTCTCCTGAGTATGCTAAACTCCCCAAACACCACAACAA
CACGGTGTTCCGATCTTTGGAATTAAT

Alignment

ORF - retro_nleu_730 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 76.47 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  IVLLSIP-FFSVPVAWTLTNIIHNLGMYVFLHA-VKGTPFETPDQGKARLLTHWEQLDYGVQFTSSRKFF
          .VL.SIP.FF.V..A.TLTNIIHNLG...F.HA..KG.P.ETPDQGKARL..H.EQL..GV.FTSS.K.F
Retrocopy VVLRSIP<FFRVLIA*TLTNIIHNLGINGFFHA<LKGAPLETPDQGKARLPKH*EQLGDGVPFTSSWKCF

Parental  TISPIILYFLASFYTKYDPTHFILNTASLLSVL-IPKMPQLHGVRIFGIN
          TISPIIL.F...F..KY.PTH.I..TASLLS.L..P..PQ.HGV.IFGIN
Retrocopy TISPIIL-FSSKFL*KYAPTHSIVSTASLLSML>TPQTPQQHGVPIFGIN

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_730 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 12 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005579	1 retrocopy	retro_cjac_2962,
Homo sapiens	ENSG00000128699	1 retrocopy	retro_hsap_645,
Gorilla gorilla	ENSGGOG00000015259	1 retrocopy	retro_ggor_565,
Loxodonta africana	ENSLAFG00000007769	1 retrocopy	retro_lafr_411,
Myotis lucifugus	ENSMLUG00000014339	1 retrocopy	retro_mluc_2318,
Macaca mulatta	ENSMMUG00000014316	1 retrocopy	retro_mmul_2432,
Nomascus leucogenys	ENSNLEG00000006625	1 retrocopy	retro_nleu_730 ,
Pongo abelii	ENSPPYG00000013017	2 retrocopies	retro_pabe_570, retro_pabe_571,
Pan troglodytes	ENSPTRG00000012736	1 retrocopy	retro_ptro_469,
Sus scrofa	ENSSSCG00000016044	1 retrocopy	retro_sscr_247,
Tupaia belangeri	ENSTBEG00000012942	1 retrocopy	retro_tbel_10,
Tursiops truncatus	ENSTTRG00000005240	2 retrocopies	retro_ttru_1846, retro_ttru_770,