RetrogeneDB ID: retro_nleu_295

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397262.1:63642443..63642844(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TCEB2
• Ensembl ID: ENSNLEG00000009471
• Aliases: None
• Description: None

Sequence

>retro_nleu_295
ACAGGGCGGAGCGCGGCAGCGCCGGCGCATCGAGGGGCGAGGCAGCCGCCGTGATGGACGTGTTCCTCGTGATCCGGCGC
CACAGGACCACCATCTTCACTGACGCCAAGGAGTCCAGCACGGTGTTTGAGCTGAAGCGAGTCGTGGAGGGGATCCTCAA
GCGGCCGCCCGATGAGCAGCGGCTGTGCAAGGACCAACTCTTGGATGATGGCAAGACACTGGGCGAGTGTGGCTTCACCA
GGCAAACAGCACGGCCGCAGGCCCCAGCTACAGTGGGGCTGGCCTTCCGGGCGGACGACGCCTTTGAGGCCCTGTGCATC
CAGCCGTTCTCCAGCCCGCCCGAGCTGCTCGACGTGATGAAGCCCCAGGACTCGGGAAGCAGTGCCAATGAACAAGCTGT
G

Alignment

ORF - retro_nleu_295 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.29 %
• Parental protein coverage: 74.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TGRSAAAPARRGERQPPXXTC-LMIRRHKTT-IFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLL
          TGRSAAAPA.RG.RQPP..TC.....R...T.IFTDAKESSTVFELKR.VEGILKRPPDEQRL.K.DQLL
Retrocopy TGRSAAAPAHRGARQPP*WTC<FLVIRRHRTTIFTDAKESSTVFELKRVVEGILKRPPDEQRLCK-DQLL

Parental  DDGKTLGECGFTSQTARPQAPATVGLAFRADDTFEALCIEPFSSPPELPDVMKPQDSGSSANEQAV
          DDGKTLGECGFT.QTARPQAPATVGLAFRADD.FEALCI.PFSSPPEL.DVMKPQDSGSSANEQAV
Retrocopy DDGKTLGECGFTRQTARPQAPATVGLAFRADDAFEALCIQPFSSPPELLDVMKPQDSGSSANEQAV

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_295 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 49 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019543	3 retrocopies	retro_btau_142, retro_btau_17, retro_btau_29,
Callithrix jacchus	ENSCJAG00000015347	10 retrocopies	retro_cjac_1593, retro_cjac_1606, retro_cjac_2051, retro_cjac_2613, retro_cjac_2987, retro_cjac_3030, retro_cjac_342, retro_cjac_3819, retro_cjac_639, retro_cjac_959,
Cavia porcellus	ENSCPOG00000021024	1 retrocopy	retro_cpor_1416,
Felis catus	ENSFCAG00000004711	2 retrocopies	retro_fcat_112, retro_fcat_40,
Homo sapiens	ENSG00000103363	2 retrocopies	retro_hsap_1246, retro_hsap_940,
Gorilla gorilla	ENSGGOG00000015306	1 retrocopy	retro_ggor_976,
Monodelphis domestica	ENSMODG00000016536	4 retrocopies	retro_mdom_1149, retro_mdom_1617, retro_mdom_1964, retro_mdom_23,
Mustela putorius furo	ENSMPUG00000015265	1 retrocopy	retro_mputfur_469,
Mus musculus	ENSMUSG00000055839	7 retrocopies	retro_mmus_1212, retro_mmus_1489, retro_mmus_1664, retro_mmus_2930, retro_mmus_511, retro_mmus_747, retro_mmus_99,
Nomascus leucogenys	ENSNLEG00000009471	2 retrocopies	retro_nleu_295 , retro_nleu_89,
Oryctolagus cuniculus	ENSOCUG00000010116	2 retrocopies	retro_ocun_202, retro_ocun_930,
Pongo abelii	ENSPPYG00000007013	1 retrocopy	retro_pabe_74,
Pan troglodytes	ENSPTRG00000007663	1 retrocopy	retro_ptro_857,
Rattus norvegicus	ENSRNOG00000004814	6 retrocopies	retro_rnor_1226, retro_rnor_1275, retro_rnor_185, retro_rnor_1948, retro_rnor_35, retro_rnor_352,
Sus scrofa	ENSSSCG00000008061	1 retrocopy	retro_sscr_858,
Tursiops truncatus	ENSTTRG00000015454	5 retrocopies	retro_ttru_1030, retro_ttru_109, retro_ttru_1276, retro_ttru_1909, retro_ttru_273,