RetrogeneDB ID: retro_nleu_802

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397273.1:5622850..5623873(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANXA2
• Ensembl ID: ENSNLEG00000011678
• Aliases: None
• Description: Annexin [Source:UniProtKB/TrEMBL;Acc:G1RMA9]

Sequence

>retro_nleu_802
GCTTCCTTCAAAATGTATACTATTTATGAAATCCTGTGCAAGCTCAGCTTGGAGGGTGATCACTCTACACCCTCAAGTGC
ATATGGGTCAGTCAAAGCCTAAACCAACTTTGATGCTGAGGGGGATGCTTTGAACATTGAAAGGACCATCAGCACAAAAG
GTGTGGGTGAGTTCACCATTGTCAACATTTTGACCAACAGCAGGAATGCTCAGAGACAGGATATTACCTTTGCCTAGCAG
AGAAGGACCAAAAAGGAACTTGCATCAGCACTGAAGTCAGCCTTACTGGCCACCTGGAGACAGTCATTTTGGGCCTATTG
AAGACACCTGCTCAGTATGATGCTTCTGAGCTAAAACCTTCCATGAAGGGGCTGGGAACCGAGGAGGACTCCCTGGTTGA
GATCATCTGCTCAACAACCAACCAGGAGCTCCAGGAAATTAACAGAATCTACAAAGAAATGTACAAAACTGATCTGGAGA
AGGACATTATTTCGGACACATATGGAGACTTCCGCAAGCTGATGTTTGCCCTGGCAAAGGTTAGAAGACCAGAGGATGGC
TCTGTCATGGATTATGAACTGATTGACCAAGATGCCTGGGATTTCTATGACGCTGGAGTGAAGAGGAAAAGAACTGATGT
TCCCAAGTGGATCAGCATCATGACTGAGCAGAGCATGTCCCACCTCCAGAAAGTATTTGACAGGTACAAGAGCTACAGCC
CATCAAGAGAGAGCATCAAGAAAGAGGTTAAAGGAGACCTGGGAAATGCTTTCCTGAACCTGGTCCAGTGCATTCAGAAC
AATCCCCTGTATTTTGCTGATTGGCTGTACTACTCCACGAAGGGCAAGGGGACTCGAGATAGGGTCCTGATCAGAATCAT
CATCTCCCGCAGTGAAGTGGACATGTTGAAAATTAGGTCTGAATTCAAGAGAAAGTACGGCAAGTCCCCATACTATTACA
TCCAGCAAGACACTAAGGGCGACTGCCCAGAAATCGCTGCTGTACCTGTGTGGTGGAGATGAC

Alignment

ORF - retro_nleu_802 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.51 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ASFKMSTVHEILCKLSLEGDHSTPPSAYGSVKAYTNFDAERDALNIETAIKTKGVDEVTIVNILTNRSNA
          ASFKM.T..EILCKLSLEGDHSTP.SAYGSVKA.TNFDAE.DALNIE..I.TKGV.E.TIVNILTN..NA
Retrocopy ASFKMYTIYEILCKLSLEGDHSTPSSAYGSVKA*TNFDAEGDALNIERTISTKGVGEFTIVNILTNSRNA

Parental  QRQDIAFAYQRRTKKELASALKSAL-SGHLETVILGLLKTPAQYDASELKASMKGLGTDEDSLIEIICSR
          QRQDI.FA.QRRTKKELASALKSAL..GHLETVILGLLKTPAQYDASELK.SMKGLGT.EDSL.EIICS.
Retrocopy QRQDITFA*QRRTKKELASALKSAL<TGHLETVILGLLKTPAQYDASELKPSMKGLGTEEDSLVEIICST

Parental  TNQELQEINRVYKEMYKTDLEKDIISDTSGDFRKLMVALAKGRRAEDGSVIDYELIDQDARDLYDAGVKR
          TNQELQEINR.YKEMYKTDLEKDIISDT.GDFRKLM.ALAK.RR.EDGSV.DYELIDQDA.D.YDAGVKR
Retrocopy TNQELQEINRIYKEMYKTDLEKDIISDTYGDFRKLMFALAKVRRPEDGSVMDYELIDQDAWDFYDAGVKR

Parental  KGTDVPKWISIMTERSVPHLQKVFDRYKSYSPYDMLESIRKEVKGDLENAFLNLVQCIQNKPLYFADRLY
          K.TDVPKWISIMTE.S..HLQKVFDRYKSYSP....ESI.KEVKGDL.NAFLNLVQCIQN.PLYFAD.LY
Retrocopy KRTDVPKWISIMTEQSMSHLQKVFDRYKSYSP--SRESIKKEVKGDLGNAFLNLVQCIQNNPLYFADWLY

Parental  DSMKGKGTRDKVLIRIMVSRSEVDMLKIRSEFKRKYGKSLYYYIQQDTKGD-YQKALLYLCGGDD
          .S.KGKGTRD.VLIRI..SRSEVDMLKIRSEFKRKYGKS.YYYIQQDTKGD..QK.LLYLCGGDD
Retrocopy YSTKGKGTRDRVLIRIIISRSEVDMLKIRSEFKRKYGKSPYYYIQQDTKGD>AQKSLLYLCGGDD

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_802 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 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016686	3 retrocopies	retro_cfam_1631, retro_cfam_367, retro_cfam_707,
Homo sapiens	ENSG00000182718	3 retrocopies	retro_hsap_3114, retro_hsap_4150, retro_hsap_580,
Gorilla gorilla	ENSGGOG00000009738	3 retrocopies	retro_ggor_2137, retro_ggor_2788, retro_ggor_515,
Macropus eugenii	ENSMEUG00000008980	3 retrocopies	retro_meug_1000, retro_meug_312, retro_meug_389,
Myotis lucifugus	ENSMLUG00000002464	3 retrocopies	retro_mluc_1569, retro_mluc_2223, retro_mluc_2431,
Monodelphis domestica	ENSMODG00000011604	1 retrocopy	retro_mdom_1471,
Mustela putorius furo	ENSMPUG00000000762	2 retrocopies	retro_mputfur_73, retro_mputfur_79,
Nomascus leucogenys	ENSNLEG00000011678	2 retrocopies	retro_nleu_769, retro_nleu_802 ,
Pongo abelii	ENSPPYG00000006526	2 retrocopies	retro_pabe_2572, retro_pabe_607,
Pan troglodytes	ENSPTRG00000007132	2 retrocopies	retro_ptro_2106, retro_ptro_81,