RetrogeneDB ID: retro_nleu_124

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: ADFV01134820.1:446..1372(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TECR
• Ensembl ID: ENSNLEG00000013546
• Aliases: None
• Description: None

Sequence

>retro_nleu_124
CTGAAGCACTAAGAGGTGGAGATCCTGGACGCAAAGACAAGGGAGAAGCTGTGTTTCCTGGACAAGGTGGAGCCCCACAC
CACCACTGCAGAGATCAAGAACCTCTTTGCCAAGACCCCTCTGCAGTGGTACTCTGCCCACCAGTCCCTCCACCTGGATC
CCAAGGGCAAGTCCCTGAAGGATGAGGATGTTCTGCAGAAGCTGCCCATGGGCACCACGGCCACACGCTACTTCCAGGAC
GTGGGGGCCCAGATCAGCTGGGTGACGCTCTTCCTAACAGAGTACGGGGGGCCTCTTTTCATCTATCTGCTCTTCTACTT
CCGAGTGCCCTTCATCTATGGCAACAAATATGACTTCACATCCAGTCGGCACATGGTGGTGCACCTCAGCTGCATCTGTC
ACTCATTGCACTACGTCAAGTACCTGCTGGAGACGCTGTTCGTGCACTGCTTCTCCCATGGTACGGTGCCTTTGTGCAAC
ATCTTCAAGAACTGCACCTACTCCCGGGGCTTCACCGGGTGGATGGCCTATTACATCAATCACCCTCTCTACACACCCCC
TACTTATGGAGCTCAGCAGGTGAAACTGGCACTCGACATCTTTGTGATCTGCCTGTGCTTGGCAACTTTTCCATCCACAT
GGCCCTGCAGGACCTGTGGCCTGCTGGGTCCAAGACCCGGAAGATCCCGTACCTCACCAAGAACCCTTTCACGTGGCTCT
TCCTACTGGTGTCCTGCCCCAACTACACCTACCAGGTGGGGTCCTGGATCGGTTTTGCCATCATGACACAGTGTCTCCCA
GTGGCCCTGTTCTCCCTGGTGGGCTTCACCCAGATGACAATCTAGGCCAACGGCAAGCACTGCAGCTACCTAAAGGAGTT
CCGGGACTACCTGCCCCTGCGCATGCCCATCATCCCCTTCCTGCTC

Alignment

ORF - retro_nleu_124 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.45 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MKHYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPV
          .KH.EVEILDAKTREKLCFLDKVEPH.T.AEIKNLF.KT..QWY.A.QSL.LDPKGKSLKDEDVLQKLP.
Retrocopy LKH*EVEILDAKTREKLCFLDKVEPHTTTAEIKNLFAKTPLQWYSAHQSLHLDPKGKSLKDEDVLQKLPM

Parental  GTTATLYFRDLGAQISWVTVFLTEYAGPLFIYLLFYFRVPFIYGHKYDFTSSRHTVVHLACICHSFHYVK
          GTTAT.YF.D.GAQISWVT.FLTEY.GPLFIYLLFYFRVPFIYG.KYDFTSSRH.VVHL.CICHS.HYVK
Retrocopy GTTATRYFQDVGAQISWVTLFLTEYGGPLFIYLLFYFRVPFIYGNKYDFTSSRHMVVHLSCICHSLHYVK

Parental  RLLETLFVHRFSHGTMPLRNIFKNCTYYWGFAAWMAYYINHPLYTPPTYGAQQVKLALAIFVICQ-LGNF
          .LLETLFVH.FSHGT.PL.NIFKNCTY..GF..WMAYYINHPLYTPPTYGAQQVKLAL.IFVIC..L..F
Retrocopy YLLETLFVHCFSHGTVPLCNIFKNCTYSRGFTGWMAYYINHPLYTPPTYGAQQVKLALDIFVICLCLATF

Parental  -SIHMALRDLRPAGSKTRKIPYPTKNPFTWLFLLVSCPNYTYEVGSWIGFAIMTQCLPVALFSLVGFTQM
          .SIHMAL.DL.PAGSKTRKIPY.TKNPFTWLFLLVSCPNYTY.VGSWIGFAIMTQCLPVALFSLVGFTQM
Retrocopy <SIHMALQDLWPAGSKTRKIPYLTKNPFTWLFLLVSCPNYTYQVGSWIGFAIMTQCLPVALFSLVGFTQM

Parental  TIWAKGKHRSYLKEFRDYPPLRMPIIPFLL
          TI.A.GKH.SYLKEFRDY.PLRMPIIPFLL
Retrocopy TI*ANGKHCSYLKEFRDYLPLRMPIIPFLL

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_124 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000020013	1 retrocopy	retro_etel_1012,
Homo sapiens	ENSG00000099797	1 retrocopy	retro_hsap_3092,
Mus musculus	ENSMUSG00000031708	1 retrocopy	retro_mmus_1662,
Nomascus leucogenys	ENSNLEG00000013546	1 retrocopy	retro_nleu_124 ,
Pongo abelii	ENSPPYG00000009648	2 retrocopies	retro_pabe_2561, retro_pabe_3591,
Rattus norvegicus	ENSRNOG00000021808	1 retrocopy	retro_rnor_579,