RetrogeneDB ID: retro_nleu_1793

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397309.1:9505039..9505260(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CKS2
• Ensembl ID: ENSNLEG00000008729
• Aliases: None
• Description: None

Sequence

>retro_nleu_1793
CAAGCAGATTACTCGGACAAGTACTTCGACGAGCACTACAAGTACCGGCATGTTACGTTACCCAGAGAACTTTCCAAACA
AGTACCTAAAACTCATCTGATGTCTGAAAAGGAGTGGAGGAGACTTGTGTCCAACGGCGTCTAGGCTGGGTTCATTACAT
GATTCATGAGCCAGAACCACAGATTCTCTTCAGAGGACCTCTTCCAAAAGATAAACAAAAA

Alignment

ORF - retro_nleu_1793 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.58 %
• Parental protein coverage: 94.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QIYYSDKYFDEYYEYRHVMLPRELSKQVPKTHLMSEEEWRRL-GVQQSLGWVHYMIHEPEPHILLFRRPL
          Q..YSDKYFDE.Y.YRHV.LPRELSKQVPKTHLMSE.EWRRL..VQ..LGWVHYMIHEPEP.I.LFR.PL
Retrocopy QADYSDKYFDEHYKYRHVTLPRELSKQVPKTHLMSEKEWRRL<CVQRRLGWVHYMIHEPEPQI-LFRGPL

Parental  PKDQQK
          PKD.QK
Retrocopy PKDKQK

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_1793 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 14 parental genes, and 42 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000002194	2 retrocopies	retro_cfam_1495, retro_cfam_472,
Callithrix jacchus	ENSCJAG00000007792	1 retrocopy	retro_cjac_261,
Echinops telfairi	ENSETEG00000001260	10 retrocopies	retro_etel_1194, retro_etel_1752, retro_etel_1839, retro_etel_229, retro_etel_590, retro_etel_704, retro_etel_717, retro_etel_721, retro_etel_838, retro_etel_979,
Felis catus	ENSFCAG00000022286	1 retrocopy	retro_fcat_1875,
Macaca mulatta	ENSMMUG00000012534	1 retrocopy	retro_mmul_269,
Mus musculus	ENSMUSG00000062248	4 retrocopies	retro_mmus_1356, retro_mmus_1470, retro_mmus_2392, retro_mmus_409,
Nomascus leucogenys	ENSNLEG00000008729	1 retrocopy	retro_nleu_1793 ,
Nomascus leucogenys	ENSNLEG00000011532	3 retrocopies	retro_nleu_1098, retro_nleu_2592, retro_nleu_411,
Otolemur garnettii	ENSOGAG00000028843	1 retrocopy	retro_ogar_798,
Pongo abelii	ENSPPYG00000025843	1 retrocopy	retro_pabe_57,
Pteropus vampyrus	ENSPVAG00000011011	3 retrocopies	retro_pvam_1297, retro_pvam_1307, retro_pvam_605,
Rattus norvegicus	ENSRNOG00000014130	5 retrocopies	retro_rnor_1209, retro_rnor_1909, retro_rnor_2742, retro_rnor_279, retro_rnor_402,
Sus scrofa	ENSSSCG00000021161	2 retrocopies	retro_sscr_458, retro_sscr_675,
Ictidomys tridecemlineatus	ENSSTOG00000000048	7 retrocopies	retro_itri_1058, retro_itri_1306, retro_itri_1429, retro_itri_1632, retro_itri_269, retro_itri_585, retro_itri_774,