RetrogeneDB ID: retro_nleu_491

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397266.1:35140258..35140887(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PARL
• Ensembl ID: ENSNLEG00000006072
• Aliases: None
• Description: None

Sequence

>retro_nleu_491
TCAGGTATCATAGCTGCAAATGTCCTTGTATTCTGTTTGTGGAGAGTGCCTTCTCTGCAGTGGACAGTGATAGATATTTC
ACATCTAATCCAGCCTCAAAGGTCCGTTGTTCTCCAATGTTGCTATCAACATTCAATCATTTCTCCTTATTTCACATGGC
AGCAAATATGTATGTTTTGTGGAGCTTCTCCTTCACTATAGTGAACATTCTGGGTCAAGAACAGTTCATGGCAATGTACC
TATCTGCAGGTATTATTTCCAATTTTGTCAGTTATGTGTGTAAAGTTGCCACACGAAGATATGGACCATCACTTGGTGCA
TCTCGCGCCATCATGATGATCCTTGCAGCTGTCAGCACTAAGATCCCAGAAGGGAGGCTTGCCATTATTTTCTTCCAATG
TTCACATTCACAGCAGGAAATGCCCTAAAATTCATTAATGCCACGGATATGGCAGGAATGATCGTGGGATGGAAATGTTT
TGACTATGCAGCACATCTTGGGGGAGCTCTCTTTGGAATATAGTATGTTACTTACAGTCTTGAACTGATTTGGAAGAACA
GGGAGCCTCTAGTGAAAATCTGGCATGAAATGAGGACTAATGCCCGCCCAAAAAAGAGGTGGCTCTAAG

Alignment

ORF - retro_nleu_491 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.51 %
• Parental protein coverage: 55.41 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TGIIAANVLVFCLWRVPSLQRTMI-RYFTSNPASKVLCSPMLLSTFSHFSLFHMAANMYVLWSFSSSIVN
          .GIIAANVLVFCLWRVPSLQ.T.I.RYFTSNPASKV.CSPMLLSTF.HFSLFHMAANMYVLWSFS..IVN
Retrocopy SGIIAANVLVFCLWRVPSLQWTVI<RYFTSNPASKVRCSPMLLSTFNHFSLFHMAANMYVLWSFSFTIVN

Parental  ILGQEQFMAVYLSAGVISNFVSYVGKVATGRYGPSLGASGAIMTVLAAVCTKIPEGRLAII-FLPMFTFT
          ILGQEQFMA.YLSAG.ISNFVSYV.KVAT.RYGPSLGAS.AIM..LAAV.TKIPEGRLAII.FLPMFTFT
Retrocopy ILGQEQFMAMYLSAGIISNFVSYVCKVATRRYGPSLGASRAIMMILAAVSTKIPEGRLAII<FLPMFTFT

Parental  AGNALKAIIAMDTAGMILGWKFFDHAAHLGGALFGIWYVTYGHELIWKNREPLVKIWHEIRTNG-PKKGG
          AGNALK.I.A.D.AGMI.GWK.FD.AAHLGGALFGI.YVTY..ELIWKNREPLVKIWHE.RTN....K.G
Retrocopy AGNALKFINATDMAGMIVGWKCFDYAAHLGGALFGI*YVTYSLELIWKNREPLVKIWHEMRTNA>AQKRG

Parental  GSK
          GSK
Retrocopy GSK

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_491 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000021241	2 retrocopies	retro_cjac_1415, retro_cjac_2384,
Dipodomys ordii	ENSDORG00000014935	1 retrocopy	retro_dord_315,
Homo sapiens	ENSG00000175193	1 retrocopy	retro_hsap_3526,
Gorilla gorilla	ENSGGOG00000000416	1 retrocopy	retro_ggor_2384,
Mus musculus	ENSMUSG00000033918	2 retrocopies	retro_mmus_1882, retro_mmus_3526,
Nomascus leucogenys	ENSNLEG00000006072	1 retrocopy	retro_nleu_491 ,
Otolemur garnettii	ENSOGAG00000006126	1 retrocopy	retro_ogar_648,
Pan troglodytes	ENSPTRG00000015673	1 retrocopy	retro_ptro_2394,
Ictidomys tridecemlineatus	ENSSTOG00000023222	1 retrocopy	retro_itri_380,