RetrogeneDB ID: retro_mdom_690

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 2:108124726..108125346(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RGS2
• Ensembl ID: ENSMODG00000012101
• Aliases: None
• Description: regulator of G-protein signaling 2, 24kDa [Source:HGNC Symbol;Acc:9998]

Sequence

>retro_mdom_690
ATGCAGAATGTTATGTTCTGACTTTCCAACCCAATTGCGGTTCCTTGGAGAAAAGCGCCTGTGGTTACCCAAAGGACAGA
GAAGTGAGAAAAGCTGAAGCAAATGATCATAAAAGACTGGAAGACAAGATTAAGCTACTTCCTACAAAATTTCATCCACA
CCTGGGAAGTCAAAAGCCCACAAGAAAGGCAAAGAGCAAGCTTTTATTAAATCTGCTCCAGAAGAAGCACAGCTGTGGTC
AGAAACATTTGATGAGCTCCTAGCCAATAAATATGGTCTTGCCACATTTTGAGCTTTTTTTAAAGTCTGAGTTTTGTGAA
GAAAACATAGAATTCTGGCTGACCTGTAAAGATTTCAAGAAAACCAAGTCTCCCCAGAAGTTGACTTCAAAGGCCTGGAA
AATTTATACTGACTTCATAGAAAAGGAGATAAATATAGACTTTCACACTAAAACCATGATTGCCCAGAATATTGAAGAGG
CTACAACTGGCTGCTTCATTATAGTCCAGAAAAGAGTCTAGAGTTTGATAGAGAACAATTGCTATCCCCGGTTTTTGGAG
TCTGAATTTTATAAGGACTTGTATAAAAAGCCACAGATTACTAGAGAGCCTCAGGCTACA

Alignment

ORF - retro_mdom_690 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.41 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MQSVMF-LAFQPNCGSMEKSACGY-PKDE-EKREKMKRTILKDWKTRLSYFLQN-SSTPGKPKANKKGKQ
          MQ.VMF.L.FQPNCGS.EKSACGY.PK...EK.EK.K..I.KDWKTRLSYFLQN.SSTPGK.KA.KKGK.
Retrocopy MQNVMF<LTFQPNCGSLEKSACGY<PKGQ<EK*EKLKQMIIKDWKTRLSYFLQN>SSTPGKSKAHKKGKE

Parental  QAFIKPSPEEAQLWSETFDELLANKYGLAAFRAF-LKSEFCEENIEFWLACEDFKKTKSPQKLNSKARKI
          QAFIK..PEEAQLWSETFDELLANKYGLA.F.AF.LKSEFCEENIEFWL.C.DFKKTKSPQKL.SKA.KI
Retrocopy QAFIKSAPEEAQLWSETFDELLANKYGLATF*AF>LKSEFCEENIEFWLTCKDFKKTKSPQKLTSKAWKI

Parental  YTDFIEKEAPKEINIDFQTKTMIAQNIEEATTGCFITAQKRVYSLMENNSYPRFLESEFYQDLCKKPQIT
          YTDFIE....KEINIDF.TKTMIAQNIEEATTGCFI..QKRV.SL.ENN.YPRFLESEFY.DL.KKPQIT
Retrocopy YTDFIE----KEINIDFHTKTMIAQNIEEATTGCFIIVQKRV*SLIENNCYPRFLESEFYKDLYKKPQIT

Parental  REPQAT
          REPQAT
Retrocopy REPQAT

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_690 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_690 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000034366	1 retrocopy	retro_btau_1349,
Cavia porcellus	ENSCPOG00000011598	1 retrocopy	retro_cpor_1121,
Macropus eugenii	ENSMEUG00000007191	1 retrocopy	retro_meug_1498,
Monodelphis domestica	ENSMODG00000012101	1 retrocopy	retro_mdom_690 ,