RetrogeneDB ID: retro_nleu_997

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397278.1:25339723..25340163(+)
• Located in intron of: ENSNLEG00000010486

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZFAND1
• Ensembl ID: ENSNLEG00000002584
• Aliases: None
• Description: None

Sequence

>retro_nleu_997
AAACATAAATTTTACCTATGCTCATTCAAGGACCGTGTTGAAAAACTTGTGGCAGTTATACGTCCTTACTGTGAGAATAA
TTTTTGCCTGAGACACCATCATCAGTCAGATCACAAGTGTGAAAAACTGGAAATCCCAAAGCCTTACATGGCTGCCACTC
AGAAACTTGTTAAAGACATTGATTCCAAAACAGGAGAGACAGCAAGCAAACAAGGGAAAGGTGACAAAAAATAGTAAAAC
AGCTGTAAAGGAATTGCGTTGAAATTAAGGATATATGCTGATGGGGATAAATCACTGCCACAAGAAGAAAGTATTTGCTT
TCAAGTTTTCTTACCTAAGGGGAGCAAAGAGAAGGGCAAACCAATGTTCTTTTCCATGGATGAAGCATCAGAAAGGTCAC
AGACTTTGCCACTTCTCTGGCCAGTCTTAAAGATGACAAT

Alignment

ORF - retro_nleu_997 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.33 %
• Parental protein coverage: 55.6 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QHTSFPCSFKDCAERELVAVICPYCEKNFCLRHRHQSDHECEKLEIPKPRMAATQKLVKDIIDSKIGETA
          .H....CSFKD..E..LVAVI.PYCE.NFCLRH.HQSDH.CEKLEIPKP.MAATQKLVKDI.DSK.GETA
Retrocopy KHKFYLCSFKDRVEK-LVAVIRPYCENNFCLRHHHQSDHKCEKLEIPKPYMAATQKLVKDI-DSKTGETA

Parental  SKRRKGAKNSETAAKVALMKLKMHADGDKSVPQTERIYLQVFLPKGSKEKRKAMFFC-HRWSIGKAIDFA
          SK..KG.K......K....KL...ADGDKS.PQ.E.I..QVFLPKGSKEK.K.MFF..H..SI.K..DFA
Retrocopy SKQGKGDKK**NSCKGIALKLRIYADGDKSLPQEESICFQVFLPKGSKEKGKPMFFS<HG*SIRKVTDFA

Parental  ASLARLKNDN
          .SLA.LK.DN
Retrocopy TSLASLKDDN

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_997 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000014075	1 retrocopy	retro_cpor_312,
Homo sapiens	ENSG00000104231	1 retrocopy	retro_hsap_187,
Gorilla gorilla	ENSGGOG00000023665	1 retrocopy	retro_ggor_268,
Microcebus murinus	ENSMICG00000016889	1 retrocopy	retro_mmur_1073,
Macaca mulatta	ENSMMUG00000002626	1 retrocopy	retro_mmul_394,
Mus musculus	ENSMUSG00000039795	1 retrocopy	retro_mmus_2093,
Nomascus leucogenys	ENSNLEG00000002584	1 retrocopy	retro_nleu_997 ,
Otolemur garnettii	ENSOGAG00000009813	2 retrocopies	retro_ogar_2608, retro_ogar_514,
Tupaia belangeri	ENSTBEG00000015393	1 retrocopy	retro_tbel_3648,