RetrogeneDB ID: retro_nleu_1567

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397299.1:17817375..17817691(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BOLA3
• Ensembl ID: ENSNLEG00000000320
• Aliases: None
• Description: None

Sequence

>retro_nleu_1567
ATGGCGGCATGGATCCTGGCCGCTGCAGCGCCTCTGCTCTGTGGGATCTGTGGGTTTCTTCTTCTCCACCGTGTTCATCG
GATGTTTGCCTCCCAGACTGAGAGGGAGCTAAACGTGACCCAAATTCTCAACAAAAACTTTCCTTAGCTACAGCTATCAA
AGTCACTGACATTTCAGGAGGTTGTAGGTGATGCATGAAATTAAAATTGCATCAGAAGAATTTAAGAACTGTCCAGCAGC
ACCAGATGGTTATCAGGCATTAAAAGAATAACTCAAAGGGATGCATGGATTGAGAATACTTACCTCTGTCCCTAAA

Alignment

ORF - retro_nleu_1567 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.47 %
• Parental protein coverage: 99.07 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAAWSPAAAAPLLRGIRG-LPLH--HRMFATQTEGELRVTQILKEKFP-RATAIKVTDISGGCGAMYEIK
          MAAW..AAAAPLL.GI.G.L.LH..HRMFA.QTE.EL.VTQIL...FP..ATAIKVTDISGGC......K
Retrocopy MAAWILAAAAPLLCGICGFLLLHRVHRMFASQTERELNVTQILNKNFP<LATAIKVTDISGGCR*CMKLK

Parental  IESEEFKEKRTVQQHQMV-NQALKEEIKGMHGLRIFTSVPK
          ......K..RTVQQHQMV..QALKE..KGMHGLRI.TSVPK
Retrocopy LHQ---KNLRTVQQHQMV<YQALKE*LKGMHGLRILTSVPK

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_1567 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 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017844	1 retrocopy	retro_cjac_1112,
Homo sapiens	ENSG00000163170	3 retrocopies	retro_hsap_1959, retro_hsap_3383, retro_hsap_4148,
Gorilla gorilla	ENSGGOG00000024505	4 retrocopies	retro_ggor_1423, retro_ggor_1424, retro_ggor_2290, retro_ggor_2786,
Macaca mulatta	ENSMMUG00000015207	2 retrocopies	retro_mmul_1181, retro_mmul_2109,
Mus musculus	ENSMUSG00000045160	1 retrocopy	retro_mmus_1648,
Nomascus leucogenys	ENSNLEG00000000320	4 retrocopies	retro_nleu_1391, retro_nleu_1567 , retro_nleu_2604, retro_nleu_971,
Oryctolagus cuniculus	ENSOCUG00000016658	1 retrocopy	retro_ocun_51,
Pongo abelii	ENSPPYG00000012285	2 retrocopies	retro_pabe_1618, retro_pabe_3461,
Pan troglodytes	ENSPTRG00000012078	3 retrocopies	retro_ptro_1309, retro_ptro_2299, retro_ptro_2820,
Sorex araneus	ENSSARG00000001754	1 retrocopy	retro_sara_83,