RetrogeneDB ID: retro_nleu_2751

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397418.1:2946353..2947309(-)
• Located in intron of: ENSNLEG00000002353

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACTR1A
• Ensembl ID: ENSNLEG00000015157
• Aliases: None
• Description: None

Sequence

>retro_nleu_2751
ATGGAGTCCTACGATGTAATCACCAACCAGCCTGTTGTGATCGACATGGATCTGGTGTGATTAAAGCTGGTTTTGCTGGT
GATCAGATCCCCAAATACTGCTTTCCAAACTACATGGGCCTACCCATGCACATTCGTATCATGGCAGGAGCCCTTGAAGG
TGACATCTTCATTGGCTCTAAAGCCAAGGAGCACCAAGGGCTGCTCTCGATCAGCTATCTCATGGAGCATGGCATTGGCA
AGGACTGGAATGACATGGAACACATCTGGCAATATGTCTATTCTAAGGACCAGCTGCAGACTTTCTCAGAGGAGCATCTT
GCGCTCCTCACTGAGGCACCTTTAAACCCACAAAGACACCAGGAACAAGCTGCTGACGTTTTCTTCAAGAGCTTCAATGT
GCCTGCTATTTTCATCTCCAGGTAAGCTGTGCTCAGCCTTTATGCCACAGGCAGGACCATGGGGGTGGCGTTGGATTCTG
GGGATGGCATCACCCATGCTGTGCCCATCTATGAGGGCTTTGCCATGCCCCACTCCATCACGTGCATTGACATCACAGGC
CGGGACATCTCTCACTTCCTGCGCCTCTACCTGCATAAGGGGGGCTACGATTTCCACTCATCCTCCGAGTTTGAGATTGT
CAAGGCCATAAAAGAAAGACCCTCCTACCTATCCATAAACCCCCAGAAGGAAGAGACACTAGGGACAGAGAAGGCTCAGT
ACTACTTGCCTGATGGCAGCACCATTGAGATTGGTCCTTCCCAATTCCGGGCCCCTGAGCTGCTCTTCAGGCCAGACTTG
ATCAGGGAGGAGAGTGAAGGCATCCACAAGGTCCTGGTGTTCGCCATCCAGAAGTCAGACACGGACCTGCAGCTCACGCT
TTTCTCCAACCTCATCCTCTTGGGAGGCTCTACCTTGTTCAAAGGTTTTGGTGACAGGCTACTGAGTGAAGTGAAG

Alignment

ORF - retro_nleu_2751 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.06 %
• Parental protein coverage: 84.84 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MESYDVIANQPVVID-NGSGVIKAGFAGDQIPKYCFPNYVGRPKHVRVMAGALEGDIFIGPKAEEHRGLL
          MESYDVI.NQPVVID..GSGVIKAGFAGDQIPKYCFPNY.G.P.H.R.MAGALEGDIFIG.KA.EH.GLL
Retrocopy MESYDVITNQPVVID<HGSGVIKAGFAGDQIPKYCFPNYMGLPMHIRIMAGALEGDIFIGSKAKEHQGLL

Parental  SIRYPMEHGIVKDWNDMERIWQYVYSKDQLQTFSEEHPVLLTEAPLNPRKNRERAAEVFFETFNVPALFI
          SI.Y.MEHGI.KDWNDME.IWQYVYSKDQLQTFSEEH..LLTEAPLNP....E.AA.VFF..FNVPA.FI
Retrocopy SISYLMEHGIGKDWNDMEHIWQYVYSKDQLQTFSEEHLALLTEAPLNPQRHQEQAADVFFKSFNVPAIFI

Parental  SMQAVLSLYATGRTTGVVLDSGDGVTHAVPIYEGFAMPHSIMRIDIAGRDVSRFLRLYLRKEGYDFHSSS
          S..AVLSLYATGRT.GV.LDSGDG.THAVPIYEGFAMPHSI..IDI.GRD.S.FLRLYL.K.GYDFHSSS
Retrocopy SR*AVLSLYATGRTMGVALDSGDGITHAVPIYEGFAMPHSITCIDITGRDISHFLRLYLHKGGYDFHSSS

Parental  EFEIVKAIKERACYLSINPQKDETLETEKAQYYLPDGSTIEIGPSRFRAPELLFRPDLIGEESEGIHEVL
          EFEIVKAIKER..YLSINPQK.ETL.TEKAQYYLPDGSTIEIGPS.FRAPELLFRPDLI.EESEGIH.VL
Retrocopy EFEIVKAIKERPSYLSINPQKEETLGTEKAQYYLPDGSTIEIGPSQFRAPELLFRPDLIREESEGIHKVL

Parental  VFAIQKSDMDLRRTLFSNIVLSGGSTLFKGFGDRLLSEVK
          VFAIQKSD.DL..TLFSN..L.GGSTLFKGFGDRLLSEVK
Retrocopy VFAIQKSDTDLQLTLFSNLILLGGSTLFKGFGDRLLSEVK

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_2751 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.

---

Parental genes homology:

Parental genes homology involve 10 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000138107	1 retrocopy	retro_hsap_2141,
Mus musculus	ENSMUSG00000025228	1 retrocopy	retro_mmus_2686,
Nomascus leucogenys	ENSNLEG00000012233	1 retrocopy	retro_nleu_2313,
Nomascus leucogenys	ENSNLEG00000013385	15 retrocopies	retro_nleu_1008, retro_nleu_1058, retro_nleu_1059, retro_nleu_1150, retro_nleu_1347, retro_nleu_1474, retro_nleu_1729, retro_nleu_2193, retro_nleu_2393, retro_nleu_2574, retro_nleu_2669, retro_nleu_3032, retro_nleu_344, retro_nleu_813, retro_nleu_974,
Nomascus leucogenys	ENSNLEG00000014347	1 retrocopy	retro_nleu_1585,
Nomascus leucogenys	ENSNLEG00000015157	1 retrocopy	retro_nleu_2751 ,
Nomascus leucogenys	ENSNLEG00000015506	3 retrocopies	retro_nleu_1525, retro_nleu_1536, retro_nleu_1930,
Pongo abelii	ENSPPYG00000002605	1 retrocopy	retro_pabe_1930,
Pan troglodytes	ENSPTRG00000002894	1 retrocopy	retro_ptro_1567,
Drosophila melanogaster	FBgn0011745	1 retrocopy	retro_dmel_80,