RetrogeneDB ID: retro_nleu_2383

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397350.1:4066973..4067498(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANP32A
• Ensembl ID: ENSNLEG00000013347
• Aliases: None
• Description: None

Sequence

>retro_nleu_2383
AACAGGATGCCCTCTGATATGAAAGAACTTGTCCTGGACAACAGTCGGTCGAATGAAGGCAAACTCGAAGGCCTCACAGA
TGAATTTGAAGAACTGGAATTCTTAAGTACAATCAACGTAGGCCTCACCTCAATCGCAAACTTACCAAAGTTAAACTTAA
GGAGCTTGAACTAAGCGATAACAGAGTCTCAGGGGTTGTGGAAGTATTGGCAGAAAAGTGTCCGAACCTCACGCATCTAA
ATTTAAGTGGCAACAAAATTAAAGACCTCAGCACAACAGAGCCACTGAAAAAAGTTTGAAAACATCAAGAGCTTAGACCT
TTTCAATTGCGATGTAACCAACCTGAACGACTACCGAGAAAACGTGTTCAAGCTACTCCCGCAACTCACGTATCTCGACG
GCTATGACCCGGACGACAAGGAGGCCCCTAACTTGGATGCTGAGGGCTACGTGGAGGGCCTGGATGAGGAGGATGAGGAT
GAGGATGAGGAGGAGTATGATGAAGATGCTCAGGTAGTGGAAGAC

Alignment

ORF - retro_nleu_2383 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.34 %
• Parental protein coverage: 70.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NRTPSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIAN-LPKLNKLKKLELSDNRVSGGLE
          NR.PSD.KELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIAN.L.K..KLK.LELSDNRVSG..E
Retrocopy NRMPSDMKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIAN<LTKV-KLKELELSDNRVSGVVE

Parental  VLAEKCPNLTHLNLSGNKIKDLSTIEPLKKL-ENLKSLDLFNCEVTNLNDYRENVFKLLPQLTYLDGYDR
          VLAEKCPNLTHLNLSGNKIKDLST.EPLKK..EN.KSLDLFNC.VTNLNDYRENVFKLLPQLTYLDGYD.
Retrocopy VLAEKCPNLTHLNLSGNKIKDLSTTEPLKKV>ENIKSLDLFNCDVTNLNDYRENVFKLLPQLTYLDGYDP

Parental  DDKEAPDSDAEGYVEGLDDEEEDEDEEEYDEDAQVVED
          DDKEAP..DAEGY..................DAQVVED
Retrocopy DDKEAPNLDAEGYXXXXXXXXXXXXXXXXXXDAQVVED

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_2383 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 15 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002339	2 retrocopies	retro_cjac_3305, retro_cjac_3799,
Dasypus novemcinctus	ENSDNOG00000015360	5 retrocopies	retro_dnov_1199, retro_dnov_1250, retro_dnov_1696, retro_dnov_836, retro_dnov_956,
Dipodomys ordii	ENSDORG00000008611	1 retrocopy	retro_dord_240,
Felis catus	ENSFCAG00000015773	1 retrocopy	retro_fcat_1188,
Homo sapiens	ENSG00000140350	3 retrocopies	retro_hsap_1479, retro_hsap_3117, retro_hsap_48,
Gorilla gorilla	ENSGGOG00000015417	1 retrocopy	retro_ggor_1134,
Loxodonta africana	ENSLAFG00000022560	1 retrocopy	retro_lafr_679,
Nomascus leucogenys	ENSNLEG00000013347	2 retrocopies	retro_nleu_15, retro_nleu_2383 ,
Nomascus leucogenys	ENSNLEG00000016941	1 retrocopy	retro_nleu_3009,
Otolemur garnettii	ENSOGAG00000003058	1 retrocopy	retro_ogar_2596,
Ochotona princeps	ENSOPRG00000015394	2 retrocopies	retro_opri_302, retro_opri_563,
Pan troglodytes	ENSPTRG00000007219	2 retrocopies	retro_ptro_2108, retro_ptro_758,
Rattus norvegicus	ENSRNOG00000045651	1 retrocopy	retro_rnor_1043,
Sarcophilus harrisii	ENSSHAG00000010906	1 retrocopy	retro_shar_540,
Tupaia belangeri	ENSTBEG00000016417	2 retrocopies	retro_tbel_4078, retro_tbel_4595,