RetrogeneDB ID: retro_nleu_338

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397263.1:3618433..3618874(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRAS
• Ensembl ID: ENSNLEG00000005266
• Aliases: None
• Description: None

Sequence

>retro_nleu_338
ATGACTGAATATCAACTTGCGGTAGTTGGAGCTGATGGCGTAAGCAAGAGTGTCTTGACGATACAGCTAATTCAGAATCA
TTCTGTGGACGAATGTGATCCAACAATAGAGAATTTCTACAGGAAGCAAGTAGTAATTGATGGAGAAACCTGTCTCTTGG
ATATTCTTGACACAGCAGGTCAAGAAGAGTACAATGCAATGAGGGACCAGTACATGAGGACTGCGGGGGCTTTCTTGGTG
TATTTGCCATAAATAATATTAAATCATTTGAAGATATGCACAATTATAGAGAACAAATTAAAAGATTTAAGGACTCTGAA
GATGTGCCTATGGTCCTAGTAGGAAATAAATGTGATTTGCCTTCTAGAACAGTAGACACAAAAAGCTCAGGACTTAGCAA
GGAGTTAGGGAATTCCTTTTATTGAAACATCAGCAAAGACA

Alignment

ORF - retro_nleu_338 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.0 %
• Parental protein coverage: 78.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQ
          MTEY.L.VVGA.GV.KS.LTIQLIQNH.VDE.DPTIE..YRKQVVIDGETCLLDILDTAGQEEY.AMRDQ
Retrocopy MTEYQLAVVGADGVSKSVLTIQLIQNHSVDECDPTIENFYRKQVVIDGETCLLDILDTAGQEEYNAMRDQ

Parental  YMRTG-EGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLARSYG-
          YMRT...GFL.VFAINN.KSFED.H.YREQIKR.KDSEDVPMVLVGNKCDLPSRTVDTK....L....G.
Retrocopy YMRTA<GGFLGVFAINNIKSFEDMHNYREQIKRFKDSEDVPMVLVGNKCDLPSRTVDTK-SSGLSKELG>

Parental  IPFIETSAKT
          IPFIETSAKT
Retrocopy IPFIETSAKT

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_338 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.

---

Parental genes homology:

Parental genes homology involve 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000011469	1 retrocopy	retro_dord_520,
Erinaceus europaeus	ENSEEUG00000003058	1 retrocopy	retro_eeur_160,
Homo sapiens	ENSG00000133703	1 retrocopy	retro_hsap_3474,
Macaca mulatta	ENSMMUG00000015381	1 retrocopy	retro_mmul_1766,
Monodelphis domestica	ENSMODG00000017458	1 retrocopy	retro_mdom_153,
Nomascus leucogenys	ENSNLEG00000003055	1 retrocopy	retro_nleu_935,
Nomascus leucogenys	ENSNLEG00000003573	2 retrocopies	retro_nleu_1034, retro_nleu_481,
Nomascus leucogenys	ENSNLEG00000004018	1 retrocopy	retro_nleu_1069,
Nomascus leucogenys	ENSNLEG00000005266	1 retrocopy	retro_nleu_338 ,
Tupaia belangeri	ENSTBEG00000003830	2 retrocopies	retro_tbel_2242, retro_tbel_271,