RetrogeneDB ID: retro_nleu_2985

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397545.1:374903..375576(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARRDC3
• Ensembl ID: ENSNLEG00000013887
• Aliases: None
• Description: None

Sequence

>retro_nleu_2985
GAAGTTACTGGCAAAATCAGAGTAAAATCTCTTAACATTCATGCAAGAGGACACTTGGAAATACGCTCGGCTGACTCTAG
AAACACTGACACCAATACTGCCTGTACCCGGAATTACACGGAAGAAGTAGAATATTTCAACCATAAAGATATCCTAATTG
GACACGAAAGAGTCAATGATAATTCCAAAGAAGGCTTCATCACTATTCATTCAGGAAGGCATGAATATGCATTCAGCTCT
GAGCTTCCACAGACACCACTTGCTACCTCACTCAAAGGCAGTCGTGGTATGTGCACTCTTGTGTGAAAGCTGAATCTCAC
AGGCCCTGCCTACTAACAGTAACATCAAAGAAGGAATTTACAGTCTCCGAGTATATAAATATGAATACTCCTTCATCACT
CTCACCCCAAGCAGGCACAGAAGAAAGGACACTAGGTTGCTGGTTTTCTACCTCAGGCTCAATATCCTTAAGTGCAAAAA
TTGAAAAGAAGGGCTATACCATGGGAGAATCAACTCAGAAATTTGCTGAGACTGAGAACTGCTCTTTCCAAATGCTGGTG
CCAAAGTCAGCCATTACCAAACACAGGCCTTCCATGCCAAAGGGAAGATGAAGGAAGTAAAACAGCGTGTGGCTAACTTG
CATGAGGAATCCTTGTCATCTGGAAGGAGAGAC

Alignment

ORF - retro_nleu_2985 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.57 %
• Parental protein coverage: 54.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EVTGEIRVKSLKIHARGHAKVRWTESRNAGSNTAYTQNYTEEVEYFNHKDVLIGHERDDDNSEEGFHTIH
          EVTG.IRVKSL.IHARGH...R...SRN...NTA.T.NYTEEVEYFNHKD.LIGHER..DNS.EGF.TIH
Retrocopy EVTGKIRVKSLNIHARGHLEIRSADSRNTDTNTACTRNYTEEVEYFNHKDILIGHERVNDNSKEGFITIH

Parental  SGRHEYAFSFELPQTPLATSFEGRHGS-VRYWVKAELHRPWLLPVKLKKEFTVFEHIDINTPSLLSPQAG
          SGRHEYAFS.ELPQTPLATS..G..G..V...VKAE.HRP.LL.V..KKEFTV.E.I..NTPS.LSPQAG
Retrocopy SGRHEYAFSSELPQTPLATSLKGSRGM<VHSCVKAESHRPCLLTVTSKKEFTVSEYINMNTPSSLSPQAG

Parental  TKEKTLCCWFCTSGPISLSAKIERKGYTPGESIQIFAEIENCSSRMVVPKAAI-YQTQAFYAKGKMKEVK
          T.E.TL.CWF.TSG.ISLSAKIE.KGYT.GES.Q.FAE.ENCS..M.VPK.AI.YQTQAF.AKGKMKEVK
Retrocopy TEERTLGCWFSTSGSISLSAKIEKKGYTMGESTQKFAETENCSFQMLVPKSAI<YQTQAFHAKGKMKEVK

Parental  QLVANLRGESLSSGKTE
          Q.VANL..ESLSSG...
Retrocopy QRVANLHEESLSSGRRD

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_2985 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010525	1 retrocopy	retro_cjac_560,
Nomascus leucogenys	ENSNLEG00000013887	1 retrocopy	retro_nleu_2985 ,
Pongo abelii	ENSPPYG00000015628	1 retrocopy	retro_pabe_3452,