RetrogeneDB ID: retro_mmul_1766

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 4:54450446..54451006(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000009993
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: KRAS
• Ensembl ID: ENSMMUG00000015381
• Aliases: None
• Description: GTPase KRas [Source:RefSeq peptide;Acc:NP_001248441]

Sequence

>retro_mmul_1766
ATGACTGAATATAAACTTGCGGTAGTTGGAGCTGGTGGCGTAAGCAAGAGTGCCTTGACGATACAGCTAATTCAGAATCA
TTTTGTGGACGAATATGAGCCAACAATAGAGGATTCCTACAGGAAGCAAGTAGTAATTGATGGAGAAACCTGTCTCTTGG
ATATTCTCGACACAGCAGGTCAAGAAGAGTACAATGCAGCGAGGGACCAGTACATGAGGACTGGGTGGGCGTGGGAGGGG
TTCTTTGTTTATTTGCCATAAATAATATTAAATCATTTGAAGATATGCACAATTATAGAGAAGAAATAAAAAGATTTAAG
GACTCTGAAGATGTGCCTTTGGTCGTAGTAGGAAATAAAATGTGATTTGCCTTCTAGAATAGTAGACACAAAACAGGCTC
AGGACTTAGCAAGCAGTTAGGGGATTCCTTTTATTGAAACATCAGCAAAGACAAGACAGAGTGTTAATGATGCCTTCCAT
ACATTAGTTTGAGAAATAAAGAAAAGATGAACAAAGATGATAAGAAGAAAAAGAAGTCAAAGACAAAGTGTGTAATTATG

Alignment

ORF - retro_mmul_1766 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.41 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQ
          MTEYKL.VVGAGGV.KSALTIQLIQNHFVDEY.PTIEDSYRKQVVIDGETCLLDILDTAGQEEY.A.RDQ
Retrocopy MTEYKLAVVGAGGVSKSALTIQLIQNHFVDEYEPTIEDSYRKQVVIDGETCLLDILDTAGQEEYNAARDQ

Parental  YMRTG---EGF-LCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGN-KCDLPSRTVDTKQAQDLAR
          YMRTG...EGF.LC.FAINN.KSFED.H.YRE.IKR.KDSEDVP.V.VGN.KCDLPSR.VDTKQAQDLA.
Retrocopy YMRTGWAWEGF<LCLFAINNIKSFEDMHNYREEIKRFKDSEDVPLVVVGN>KCDLPSRIVDTKQAQDLAS

Parental  SYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKM-SKDGKKKKKKSKTKCVIM
          S.GIPFIETSAKTRQ.V.DAF.TLV.EI.K...KM..K..KK.K....TKCVIM
Retrocopy S*GIPFIETSAKTRQSVNDAFHTLV*EIKKR*TKM<DKKKKKSK----TKCVIM

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	14.57 RPM
SRP007412_brain_prefrontal_cortex	0.08 RPM	9.12 RPM
SRP007412_cerebellum	0.00 RPM	10.33 RPM
SRP007412_heart	0.00 RPM	1.94 RPM
SRP007412_kidney	0.00 RPM	5.99 RPM
SRP007412_liver	0.00 RPM	2.89 RPM
SRP007412_testis	0.00 RPM	2.41 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1766 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1766 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1766 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 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	ENSMMUG00000011442	2 retrocopies	retro_mmul_1151, retro_mmul_1863,
Macaca mulatta	ENSMMUG00000015381	1 retrocopy	retro_mmul_1766 ,
Macaca mulatta	ENSMMUG00000016059	2 retrocopies	retro_mmul_1706, retro_mmul_882,
Monodelphis domestica	ENSMODG00000017458	1 retrocopy	retro_mdom_153,
Nomascus leucogenys	ENSNLEG00000005266	1 retrocopy	retro_nleu_338,
Tupaia belangeri	ENSTBEG00000003830	2 retrocopies	retro_tbel_2242, retro_tbel_271,