RetrogeneDB ID: retro_nleu_2941

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397498.1:996707..997591(-)
• Located in intron of: ENSNLEG00000012658

Retrocopy information

• Ensembl ID: ENSNLEG00000012692
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PRMT8
• Ensembl ID: ENSNLEG00000002986
• Aliases: None
• Description: None

Sequence

>retro_nleu_2941
TTCGGCAACTCCATGTTTCACAACCGGCACCTCTTTAAAGACAAGGTGGTGCTGGATGTGGGCTCGGACACAAGCATCCT
CTGCATGTTCGCCGCCAAGGCCGGGCCCGCAAGGTCATCGGCATCGAGTGTTCCAGTAGCTCTGATTATGCGGTGAAGAT
TGTCAAAGCCAACAAGTTAGACCACTTGGTGACCATCATCAAGGGGAAGGTGGAGGAGGTAGAGCTCCCGGTGGAAAAGG
TGGACATCATCAGCAAGCGGATGGGCTAACTGCCTCTTCTACGAGTCCATGCTCAACACCGTGCTCTATGCCCGGACAAG
TGGCGGACGCCCAATAGCCTCATCTTCCCAGACCGGGCCACACTGTATGTGACAGCCACCGAGGACCGGCAGTACAAAGA
CTACAAGATCCACTGGTGGGAGAACGTTTATGGCTTCGATATATCTTGTATCAAAGATGTGGCCATCAAGGAGCCCCTAG
TGGATGTGGTGGACCTCAAACAGCTGATCACCAACGCCTGCCTCATAAAGGAGGTAGACATTTACACCGTCAAGGTGGAA
GACCTGACCTTCACCTCCCCCTTCTGCCTGCAAGTGAAGCAGAATGACTACGTGCACGCCCAGGTGGCCTACTTCAACAT
CGAGTTTACGCACTGCCACAAGAGGACGGGCTTCTCCACCATACCCGAGTCCCTGTACACGCACTGGAAGCAGACGGTGT
TCTACATGGAGGACTACCTAACCTTGAAGACGGGCGAGGAGATCGTCGGCACCATCGGCATGCGGCCCAACACCAGGAAC
AACTGGGACCTGGACTTCACCATCAACCTAGATTTCAGAGGCCATCTATGCGACCTGTCCTGCTCCACGGACTACAGGAT
GCGC

Alignment

ORF - retro_nleu_2941 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.21 %
• Parental protein coverage: 75.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  YRNSMYHNKHVFKDKVVLDVGSGTGILSMFAAKAG-AKKVFGIECSSISDYSEKIIKANHLDNIITIFKG
          ..NSM.HN.H.FKDKVVLDVGS.T.IL.MFAAKAG.A.KV.GIECSS.SDY..KI.KAN.LD...TI.KG
Retrocopy FGNSMFHNRHLFKDKVVLDVGSDTSILCMFAAKAG<ARKVIGIECSSSSDYAVKIVKANKLDHLVTIIKG

Parental  KVEEVELPVEKVDIIISEWMG-YCLFYESMLNTVIFAR-DKWLKPGGLMFPDRAALYVVAIEDRQYKDFK
          KVEEVELPVEKVDII.S..MG..CLFYESMLNTV..AR.DKW..P..L.FPDRA.LYV.A.EDRQYKD.K
Retrocopy KVEEVELPVEKVDII-SKRMG>NCLFYESMLNTVLYAR<DKWRTPNSLIFPDRATLYVTATEDRQYKDYK

Parental  IPLQNLTLSPRRECSGTITARCNLVEAISSRHSLFSG--LQEVDIYTVKTEELSFTSAFCLQIQRNDYVH
          I............C.........LV................EVDIYTVK.E.L.FTS.FCLQ...NDYVH
Retrocopy IHWWENVYGFDISCIKDVAIKEPLVDVVDLKQLITNACLIKEVDIYTVKVEDLTFTSPFCLQVKQNDYVH

Parental  ALVTYFNIEFTKCHKKMGFSTAPDAPYTHWKQTVFYLEDYLTVRRGEEIYGTISMKPNAKNVRDLDFTVD
          A.V.YFNIEFT.CHK..GFST.P...YTHWKQTVFY.EDYLT...GEEI.GTI.M.PN..N..DLDFT..
Retrocopy AQVAYFNIEFTHCHKRTGFSTIPESLYTHWKQTVFYMEDYLTLKTGEEIVGTIGMRPNTRNNWDLDFTIN

Parental  LDFKGQLCETSVSNDYKMR
          LDF.G.LC..S.S.DY.MR
Retrocopy LDFRGHLCDLSCSTDYRMR

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_2941 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000004075	1 retrocopy	retro_meug_455,
Nomascus leucogenys	ENSNLEG00000002986	1 retrocopy	retro_nleu_2941 ,
Nomascus leucogenys	ENSNLEG00000012371	1 retrocopy	retro_nleu_75,
Pongo abelii	ENSPPYG00000004159	1 retrocopy	retro_pabe_2804,
Pan troglodytes	ENSPTRG00000004543	1 retrocopy	retro_ptro_2313,
Tupaia belangeri	ENSTBEG00000000940	1 retrocopy	retro_tbel_750,