RetrogeneDB ID: retro_nleu_980

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397278.1:2766393..2766687(+)
• Located in intron of: ENSNLEG00000009348

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIN1
• Ensembl ID: ENSNLEG00000011999
• Aliases: None
• Description: None

Sequence

>retro_nleu_980
AGCCAGTCAGGGCGGCCCTCGACCTGGCGGCAGGAAATCACCCGGACCGAGGAGGAGGCCCCGGAGCTGATCAGCGGCTA
CATCCAGAAGATGAAGGCAGGAGAGAAGGACTTTGAGTCTCTGGCCTCACAATTCAGCGACTGCAGCTCGGCCAAGGCCA
GGGGAGACCTGGGTGCCTTCAGCAAAGGTCAGATGCTGAAGCCATTTGAAGACTCCTGGTTTGCGCGGTGGACGGGGGAG
ATGAGCGGGACAGGGTTCACGGATTCCGGCATCCGCGTCATTGTCCGCACGGAG

Alignment

ORF - retro_nleu_980 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.8 %
• Parental protein coverage: 60.74 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SQSRRPSSWRQEKITRTKEEALELINGYIQKIKSGEEDFESLASQFSDCSSAKARGDLGAFSRGQMQKPF
          SQS.RPS.WRQE.ITRT.EEA.ELI.GYIQK.K.GE.DFESLASQFSDCSSAKARGDLGAFS.GQM.KPF
Retrocopy SQSGRPSTWRQE-ITRTEEEAPELISGYIQKMKAGEKDFESLASQFSDCSSAKARGDLGAFSKGQMLKPF

Parental  EDASFALRTGEMSGPVFTDSGIHIILRTE
          ED..FA..TGEMSG..FTDSGI..I.RTE
Retrocopy EDSWFARWTGEMSGTGFTDSGIRVIVRTE

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_980 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006079	1 retrocopy	retro_cjac_2925,
Homo sapiens	ENSG00000127445	1 retrocopy	retro_hsap_168,
Gorilla gorilla	ENSGGOG00000006008	1 retrocopy	retro_ggor_252,
Microcebus murinus	ENSMICG00000001996	1 retrocopy	retro_mmur_1157,
Mus musculus	ENSMUSG00000032171	1 retrocopy	retro_mmus_2072,
Nomascus leucogenys	ENSNLEG00000011999	1 retrocopy	retro_nleu_980 ,
Pongo abelii	ENSPPYG00000009537	1 retrocopy	retro_pabe_462,
Pan troglodytes	ENSPTRG00000010452	1 retrocopy	retro_ptro_159,
Rattus norvegicus	ENSRNOG00000020474	1 retrocopy	retro_rnor_1220,
Tupaia belangeri	ENSTBEG00000003793	1 retrocopy	retro_tbel_1546,