RetrogeneDB ID: retro_nleu_2851

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397451.1:1766034..1766966(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RSRC1
• Ensembl ID: ENSNLEG00000004137
• Aliases: None
• Description: None

Sequence

>retro_nleu_2851
AAAAAGCACTGTAGACGATCCTCATGGAGGAGTTCTTCAGATAGTAGAATATACAGGTGAAAGAAAGAAGGAAGGAAATC
AAGATCCAAGTCAAAATCTTGGTCCAGAGGTCTTCAGCCTCGTTCGCATTCTTATGATAGAAGATGCAGGCATCAACCAA
GGAGTAGCTCTCATGGCTCTAGAAGGAAACTAACTCGAAGTTGTTCAAGGGATCGAAAGAAATCCTATGGAGTTAAGAGG
TCTAGGTCAAAAAGCAGAATAAGAAGATCTAGGTCAAGGCCTTGTCCACGTTCTCACAGTCGGAGCAGTGAAAGGTCCAG
CCACAGAAGAATGCATAGTTGGTCTCGGGATAAAGAACAACATAAAGGCAGAGATAAAGAGAAAAGGGGAAGGATTAAGG
GAAGGATTACATAACATCAAACATGGGGAATCTGGAAACATCAAAGCTGGATTAAACCATCTGCCACCGGCTGAAGAGGC
CAAAGCCAGAATACAGCTGGTTCTTGAAGCTGCTGCAAAAGCTGATGAAGCATTGAAAGCCAAAGAAAGAAATGAGGAAG
AAGCAAAGAGAAGAAAGGAGGAAGATCAAGCCACCCTGGTAGAACAAGTGAAAAAAGTAAAAGAAATGGAAGCTGTTGAA
AGTGATTCCTTTGTTCAGCAGACATTCAGATCAATTAAGAAGTCAAAAAGTTAGTGGAATCTAGTGAAGCGAAACATGCA
ACTTCGACATCAGGACCAACATTAGCAGGTGTTGATCCACCCAGTACTGAAAACGAAATACAACTGAGCAGCATCCCTAC
TTCTATCAAATACCAAGATGACAATTCCCTGGCCCATCCAAATTTATTTATAAAGAAAGCTGGTGCTTAGCAAAAATGAT
TCAGAGGCTAATTGCTCTCTGACAAGAAAGACTAATGGGCAGTCCTGTGGCC

Alignment

ORF - retro_nleu_2851 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.69 %
• Parental protein coverage: 94.91 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KKHRRRSSSSSSSDSRTYSRKKGGRKSRSKSRSWSRDLQPRSHSYDRRRRHRSSSSSSYGSRRKRSRSRS
          KKH.RRSS..SSSDSR.Y..KK.GRKSRSKS.SWSR.LQPRSHSYDRR.RH...SS.S.GSR..R...RS
Retrocopy KKHCRRSSWRSSSDSRIYR*KKEGRKSRSKSKSWSRGLQPRSHSYDRRCRHQPRSS-SHGSR--RKLTRS

Parental  RGRGKSYRVQRSRSKSRTRRSRSRPRLRSHSRSSERSSHRRTRSRSRDRERRKGRDKEKREKEK-DKGKD
          ..R.........RS.S..R..RSR.R.....RS..RSS.R....R.....R.K...K..R.KEK...G..
Retrocopy CSRDRKKSYGVKRSRSKSRIRRSRSR--PCPRSHSRSSERSSHRRMHSWSRDKEQHKG-RDKEK>GEGLR

Parental  KELHNIKRGESGNIKAGLEHLPPAEQAKARLQLVLEAAAKADEALKAKERNEEEAKRRKEEDQATLVEQV
          ..LHNIK.GESGNIKAGL.HLPPAE.AKAR.QLVLEAAAKADEALKAKERNEEEAKRRKEEDQATLVEQV
Retrocopy EGLHNIKHGESGNIKAGLNHLPPAEEAKARIQLVLEAAAKADEALKAKERNEEEAKRRKEEDQATLVEQV

Parental  KRVKEIEAIESDSFVQQTFRSSK-EVKKSVEPSEVKQATSTSGPASAVADPPSTEKEIDPSSIPTAIKYQ
          K.VKE.EA.ESDSFVQQTFRS.K.EVKK.VE.SE.K.ATSTSGP..A..DPPSTE.EI..SSIPT.IKYQ
Retrocopy KKVKEMEAVESDSFVQQTFRSIK<EVKKLVESSEAKHATSTSGPTLAGVDPPSTENEIQLSSIPTSIKYQ

Parental  DDNSLAHPNLFIEKADAEEKWFK-RLIALRQERLMGSPVA
          DDNSLAHPNLFI.KA.A..K.F..RLIAL.QERLMGSPVA
Retrocopy DDNSLAHPNLFIKKAGA*QK*FR<RLIAL*QERLMGSPVA

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_2851 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 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004797	1 retrocopy	retro_cjac_553,
Cavia porcellus	ENSCPOG00000000876	2 retrocopies	retro_cpor_618, retro_cpor_671,
Echinops telfairi	ENSETEG00000017217	1 retrocopy	retro_etel_1555,
Homo sapiens	ENSG00000174891	1 retrocopy	retro_hsap_4281,
Mus musculus	ENSMUSG00000034544	1 retrocopy	retro_mmus_666,
Nomascus leucogenys	ENSNLEG00000004137	1 retrocopy	retro_nleu_2851 ,
Rattus norvegicus	ENSRNOG00000012639	2 retrocopies	retro_rnor_2454, retro_rnor_577,
Tupaia belangeri	ENSTBEG00000001973	13 retrocopies	retro_tbel_1285, retro_tbel_1372, retro_tbel_2078, retro_tbel_2400, retro_tbel_2545, retro_tbel_3145, retro_tbel_3313, retro_tbel_3748, retro_tbel_3834, retro_tbel_4317, retro_tbel_4458, retro_tbel_4494, retro_tbel_840,