RetrogeneDB ID: retro_mdom_182

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 7:154611074..154611593(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMODG00000024918
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMODG00000018901
• Aliases: None
• Description: None

Sequence

>retro_mdom_182
TTCTGCGCTGCAATGGCATCTAATTCTCAATCAAGTACCTGGAGGCGGAGGAAGCCCAAAGTGACAGTCGAATTATCTGA
GGGACAGAAACGTGAAATTAAAGAGACCTTCAACTTCTTTGATGTTGATGGATCTGGAAATATTGACTTGAAAGAACTAA
AGACTGCGGTTTGTGCATTAGGGTTTGAGCCAAAGAAAGAAGAAATTCATAAAATGATGGCAGAGATTGACAAAGAAGGA
CTTGGCACCATGAATTTTGAAAGCTTTCTTACCGTGATCACTACGAAAATGAGGGAAAAGGATGAAAAGGAACAACTTTT
GAAGGCTTTCAAATTATTTGATGATGATAATACAGGATGTATCACCCTCAAAAATATTAAGAAAGTTGCTAAGGAATTGG
GAGAAAATTTATCAGATGATGAACTTCAGGAAATGCTGGATGAAGCTGGTCGTTCTGGCAATGGAAAATTAAATGAAAGA
GAGTTTTTGAAGATAATGAAGAAAACCAGTCTTTATTAA

Alignment

ORF - retro_mdom_182 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.81 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASNYRPSTGLRKKPNVKVELTEGQKQEIKEAFDLFDVDGSGSIDVKELKIAMRALGFEPKKEEIKKMIA
          MASN...ST..R.KP.V.VEL.EGQK.EIKE.F..FDVDGSG.ID.KELK.A..ALGFEPKKEEI.KM.A
Retrocopy MASNSQSSTWRRRKPKVTVELSEGQKREIKETFNFFDVDGSGNIDLKELKTAVCALGFEPKKEEIHKMMA

Parental  EIDKEGFGTINFEDFFAMMSVKMSEKDEKEEILKAFKLFDDDCTGGITLKNIKRVAKELGENLSDDELQE
          EIDKEG.GT.NFE.F......KM.EKDEKE..LKAFKLFDDD.TG.ITLKNIK.VAKELGENLSDDELQE
Retrocopy EIDKEGLGTMNFESFLTVITTKMREKDEKEQLLKAFKLFDDDNTGCITLKNIKKVAKELGENLSDDELQE

Parental  MLDEADRDGDGEINEQEFLRMMKKTTLY
          MLDEA.R.G.G..NE.EFL..MKKT.LY
Retrocopy MLDEAGRSGNGKLNEREFLKIMKKTSLY

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_182 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_182 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000005932	1 retrocopy	retro_mdom_87,
Monodelphis domestica	ENSMODG00000018901	2 retrocopies	retro_mdom_182 , retro_mdom_325,
Mus musculus	ENSMUSG00000045031	1 retrocopy	retro_mmus_246,