RetrogeneDB ID: retro_nleu_2229

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397335.1:9702269..9702721(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPA17
• Ensembl ID: ENSNLEG00000007436
• Aliases: None
• Description: Sperm surface protein Sp17 [Source:UniProtKB/TrEMBL;Acc:G1R780]

Sequence

>retro_nleu_2229
GTGTCAATTCCATTCTCCAACACCCACTACTGAATTCTGCAAGGATTTGGGAGTCTTCTTGAAGAGCAGACCCACGAGAT
TCTGAGAGAGCAACCAGATACTATACAGCTTTTGCAGCAGCATATTTTGAGAGCTTTCCAGAGAAAAGAGAGAAAACCAC
TTTTGATCCAGCAGAATGGGGGACTCAGGTAGAAGACCACTTCTAGAACAGTCATGCATTCGAGGAGCAAGAACCACCTG
AGAAATGTGATCCTAAACAAGAAAACTCTCCAATATCTGGGAAGGAGGAAGAGACACCAGTCACCATCTTAGACTCTTCT
GAGGAAGATAAGGAAAAAGAAGAGGTTGCTGCTGTCAAAATCCAAGCTGCCTTCTGGGGACACATAGCCAGAGAGGAGGT
AAAGAGAATGGAAACAGATAATCTCCGACATGAGGAAACAGAGGAAAACAAG

Alignment

ORF - retro_nleu_2229 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.95 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSIPFSNTHYRIPQGFGNLLEGLTREILREQPDNIP-AFAAAYFESLLEKREKTNFDPAEWGSKVEDRFY
          .SIPFSNTHY.I.QGFG.LLE..T.EILREQPD.I..AFAAAYFES..EKREKT.FDPAEWG..VED.F.
Retrocopy VSIPFSNTHY*ILQGFGSLLEEQTHEILREQPDTIQ<AFAAAYFESFPEKREKTTFDPAEWGTQVEDHF*

Parental  NNHAFEQQEPPEKSDPKQEKSQISGKEEETSVTILDSSEEDKEKEEVAAVKIQAAFRGHIAREEAKKMKT
          N.HAFE.QEPPEK.DPKQE.S.ISGKEEET.VTILDSSEEDKEKEEVAAVKIQAAF.GHIAREE.K.M.T
Retrocopy NSHAFEEQEPPEKCDPKQENSPISGKEEETPVTILDSSEEDKEKEEVAAVKIQAAFWGHIAREEVKRMET

Parental  NSLQNEEKEENK
          ..L..EE.EENK
Retrocopy DNLRHEETEENK

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_2229 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007961	1 retrocopy	retro_cjac_978,
Echinops telfairi	ENSETEG00000007789	1 retrocopy	retro_etel_911,
Homo sapiens	ENSG00000064199	1 retrocopy	retro_hsap_696,
Gorilla gorilla	ENSGGOG00000003757	1 retrocopy	retro_ggor_593,
Macaca mulatta	ENSMMUG00000008480	1 retrocopy	retro_mmul_2405,
Nomascus leucogenys	ENSNLEG00000007436	1 retrocopy	retro_nleu_2229 ,
Pongo abelii	ENSPPYG00000004017	1 retrocopy	retro_pabe_529,
Pan troglodytes	ENSPTRG00000004426	1 retrocopy	retro_ptro_500,
Tarsius syrichta	ENSTSYG00000008379	1 retrocopy	retro_tsyr_2091,