RetrogeneDB ID: retro_nleu_98

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397321.1:4352033..4352564(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000002104
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSNLEG00000018024
• Aliases: None
• Description: None

Sequence

>retro_nleu_98
ATGGAGGAGCGGGGCGATTCCGAGCCAACTTCCGGCTGCAGCGGCCTGGGTCCGGGCGGTGTTCGCGGCTTTGGTGACGG
CGGCGAAGCTCCCTCGTGGGTCCCCGAAGATGCCTGGATGGGCACTCACCCTAAGTATTTAGAAATGATGGAATTAGATA
TAGGAGATGCCACCCAAATTTACGTAGCATTCTTGGTTTACCTGGACCTCATGGAAAGCAAAAGCTGGCTTGAAGTAAAC
TGTGTAGGATTACCAGAACTCCAGCTCATCTGCCTTGTTGGTATTGAGATAGAAGGGGAGGGGTTACAGATTGTGGTGCC
TACCCCCATCACTGCTTCTCTCAGCCATAACAGGATAAGGGAGACCTTGAAGGCATCTCGAAAATTGCAAGGTGATCCAG
ATTTGCCGATGTCTTTTACTTTGGCCATAGTGGAGTGTGATTCTACAATAGTCTATTATAAACTTACTGATGGATTTATG
CTGCCAGATCCTCAGAATATTCTCTTAGAAGATGACATCTATGTTTCCTGA

Alignment

ORF - retro_nleu_98 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.08 %
• Parental protein coverage: 98.83 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEERGDSEPTPGCSGLGPGGVRGFGDGGGAPSWAPEDAWMGTHPKYLEMMELDIGDATQVYVAFLVYLDL
          MEERGDSEPT.GCSGLGPGGVRGFGDGG.APSW.PEDAWMGTHPKYLEMMELDIGDATQ.YVAFLVYLDL
Retrocopy MEERGDSEPTSGCSGLGPGGVRGFGDGGEAPSWVPEDAWMGTHPKYLEMMELDIGDATQIYVAFLVYLDL

Parental  MESKSWHEVNCVGLPELQLICLVGTEIEGEGLQTVVPTPITASLSHNRIREILKASRKLQGDPDLPMSFT
          MESKSW.EVNCVGLPELQLICLVG.EIEGEGLQ.VVPTPITASLSHNRIRE.LKASRKLQGDPDLPMSFT
Retrocopy MESKSWLEVNCVGLPELQLICLVGIEIEGEGLQIVVPTPITASLSHNRIRETLKASRKLQGDPDLPMSFT

Parental  LAIVESDSTIVYYKLTDGFMLPDPQNISL
          LAIVE.DSTIVYYKLTDGFMLPDPQNI.L
Retrocopy LAIVECDSTIVYYKLTDGFMLPDPQNILL

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_98 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 16 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000016369	1 retrocopy	retro_btau_971,
Callithrix jacchus	ENSCJAG00000005356	1 retrocopy	retro_cjac_3055,
Dasypus novemcinctus	ENSDNOG00000017611	2 retrocopies	retro_dnov_1176, retro_dnov_2529,
Homo sapiens	ENSG00000198860	1 retrocopy	retro_hsap_1721,
Gorilla gorilla	ENSGGOG00000015804	2 retrocopies	retro_ggor_2267, retro_ggor_240,
Loxodonta africana	ENSLAFG00000014109	1 retrocopy	retro_lafr_684,
Macaca mulatta	ENSMMUG00000016409	1 retrocopy	retro_mmul_1214,
Mustela putorius furo	ENSMPUG00000011790	1 retrocopy	retro_mputfur_1261,
Mus musculus	ENSMUSG00000014980	1 retrocopy	retro_mmus_2721,
Nomascus leucogenys	ENSNLEG00000018024	1 retrocopy	retro_nleu_98 ,
Otolemur garnettii	ENSOGAG00000003128	1 retrocopy	retro_ogar_3264,
Pongo abelii	ENSPPYG00000000421	4 retrocopies	retro_pabe_1436, retro_pabe_3065, retro_pabe_3196, retro_pabe_469,
Pan troglodytes	ENSPTRG00000023202	2 retrocopies	retro_ptro_1229, retro_ptro_147,
Pteropus vampyrus	ENSPVAG00000001103	1 retrocopy	retro_pvam_1458,
Ictidomys tridecemlineatus	ENSSTOG00000013230	2 retrocopies	retro_itri_1538, retro_itri_1849,
Vicugna pacos	ENSVPAG00000002941	2 retrocopies	retro_vpac_381, retro_vpac_565,