RetrogeneDB ID: retro_mdom_153

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 5:33232510..33233077(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMODG00000025248
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: KRAS
• Ensembl ID: ENSMODG00000017458
• Aliases: None
• Description: GTPase KRas precursor [Source:RefSeq peptide;Acc:NP_001028153]

Sequence

>retro_mdom_153
ATGACTGAATATAAGCTTGTGGTAGTTGGAGCTGGTGGTGTAGGCAAGAGTGCCTTGACAATACAGCTAATTCAGAATCA
CTTTGTAGATGAGTATGATCCTACGATAGAGGATTCCTACAGGAAACAAGTAGTAATTGATGGAGAGACCTGTCTCTTGG
ATATTCTCGACACAGCAGGTCAAGAGGAATACAGTGCAATGAGGGACCAGTACATGAGGACTGGGGAGGGCTTTTTATGT
GTATTTGCCATAAATAATACTAAATCATTTGAAGATATTCACCATTATAGAGAACAAATACAAAGAGTTAAAGATTCTGA
AGATGTACCCATGGTTCTCGTAGGAAATAAATGTGATTTACCTTCCAGAACAGTAGATACAAAACAAGCTCAGGACTTAG
CAAGAAGTTATGGAATTCCTTTCATTGAAACATCAGCAAAAACAAGACAGGGTGTTGATGATGCCTTCTACACATTAGTT
CGTGAAATTCGAAAACATAAAGAAAAGATGAGCAAAGATGGTAAAAAGAAGAAAAAGAAGTCAAAGACAAAGTGTATAAT
TATGTAA

Alignment

ORF - retro_mdom_153 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.47 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQ
          MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQ
Retrocopy MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQ

Parental  YMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLARSYGIP
          YMRTGEGFLCVFAINNTKSFEDIHHYREQI.RVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLARSYGIP
Retrocopy YMRTGEGFLCVFAINNTKSFEDIHHYREQIQRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLARSYGIP

Parental  FIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKKKSKTKCIIM
          FIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKKKSKTKCIIM
Retrocopy FIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKKKSKTKCIIM

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	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.00 RPM	0.00 RPM

ChIP-Seq

Monodelphis domestica was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mdom_153 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_153 was not experimentally validated.

Homology

Retrocopy orthology:

Monodelphis domestica 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 11 parental genes, and 18 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	ENSMODG00000001323	3 retrocopies	retro_mdom_1327, retro_mdom_139, retro_mdom_1777,
Monodelphis domestica	ENSMODG00000004590	1 retrocopy	retro_mdom_51,
Monodelphis domestica	ENSMODG00000007323	5 retrocopies	retro_mdom_11, retro_mdom_1570, retro_mdom_1756, retro_mdom_1897, retro_mdom_429,
Monodelphis domestica	ENSMODG00000017458	1 retrocopy	retro_mdom_153 ,
Nomascus leucogenys	ENSNLEG00000005266	1 retrocopy	retro_nleu_338,
Pongo abelii	ENSPPYG00000004369	1 retrocopy	retro_pabe_2870,
Tupaia belangeri	ENSTBEG00000003830	2 retrocopies	retro_tbel_2242, retro_tbel_271,