RetrogeneDB ID: retro_mdom_73

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 6:253302923..253303628(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMODG00000024164
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMODG00000005254
• Aliases: None
• Description: None

Sequence

>retro_mdom_73
ATGGTAAACTACTATGAGGTGCTCGGCGTTCAGTCGAGCGCCTCTCAGGAGGACATAAAGAAGGCCTACCGTAAGCTTGC
CCTACGCTGGCACCCAGACAAGAACCCAGACAATAAGGACGAAGCAGAAAAAAAATTCAAGCAGGTGTCCGAGGCCTATG
AGGTTCTCTCCGACTCCAAGAAGAGGTCAATGTATGACAGGTCAGGGTCAGAAGGCTGGAGGGGTGGCACCGGCGGGGCA
GGTCCCACGTATAACAGCCCCTTCAGCTCTGGCTATACCTTCCGTAATCCCGAAGACATCTTTAAGGAGTTTTTTGGTGG
TATGGATCCATTCTCTTTTGACTTCTGGGACAACCCTTTCAGCAGTGACCGGGATCGAGACAGCGGCAGAGGCCGGGGTT
TGCGCGGAGCCTTTTCTGCTGGCTTCGGTGAATTCCCCGCTTTCATGGAGGCCTTCTCCTCCTTTGACTCTCTAGGCCAT
GGAGGCAGGGCCACCTTTTCCTCCACGTCCTTTGGGGGTTCAGGTTCAGGTAGCTCTGGCTACAAGTCGGTGATGTCGTC
CACGGAGATGGTCAATGGGCGGAAGGTCACCACCAAGCGGATTGTGGAGAATGGACAGGAACGAGTAGAGGTTGAGGAGG
ACGGGCAGCTGAAGTCAGTGATCATCAATGGGAAGGAACAGCTCAAATGGGTGGACAACAAGTGA

Alignment

ORF - retro_mdom_73 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.75 %
• Parental protein coverage: 71. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVDYYEVLGVQRHASPEDIKKAYRKLALKWHPDKNPENKEEAERRFKQVAEAYEVLSDAKKRDMYDKYGK
          MV.YYEVLGVQ..AS.EDIKKAYRKLAL.WHPDKNP.NK.EAE..FKQV.EAYEVLSD.KKR.MYD..G.
Retrocopy MVNYYEVLGVQSSASQEDIKKAYRKLALRWHPDKNPDNKDEAEKKFKQVSEAYEVLSDSKKRSMYDRSGS

Parental  EGLNGGGGGGGGGSHFENPFEYGFTFRNPDDVFREFFGGRDPFSFDFFDPFEDFFGNRRGTRGNRSRG-A
          EG....GG.GG.G.....PF..G.TFRNP.D.F.EFFGG.DPFSFDF.D.....F...R.....R.RG..
Retrocopy EGWR--GGTGGAGPTYNSPFSSGYTFRNPEDIFKEFFGGMDPFSFDFWD---NPFSSDRDRDSGRGRGLR

Parental  GPFFSAFGGFPGFGSGLSSFDTGFTSFGSVGHGGLSSFSSTSFGGSGMGNFKSISTTTKIVNGRKITTKR
          G.F...FG.FP.F....SSFD....S.G..G....SS.S....G....G.....S.T...VNGRK.TTKR
Retrocopy GAFSAGFGEFPAFMEAFSSFD----SLGHGGRATFSSTSFGGSGSGSSGYKSVMSST-EMVNGRKVTTKR

Parental  TFENGQERVEVEEDGQLKSLTINGVE
          ..ENGQERVEVEEDGQLKS..ING.E
Retrocopy IVENGQERVEVEEDGQLKSVIINGKE

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_73 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_73 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000005254	1 retrocopy	retro_mdom_73 ,
Ornithorhynchus anatinus	ENSOANG00000006132	1 retrocopy	retro_oana_6,