RetrogeneDB ID: retro_mdom_847

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 2:188310881..188311194(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMODG00000009677
• Aliases: None
• Description: None

Sequence

>retro_mdom_847
CTGTTCTGGGGTTGTGAGCTGAGCCAGGAGAAATGCTCTTATACTTCTGATCCCTTGGAAGATAGGAATGGTTTCCATAA
GCTGATTCTGAACATGTTTGCCTAGGGGAGAGGACAAGAGAAGAGCTAAATGTAGTGGAGATGGAACCACTTCTGATGAC
AATAACAAGAAGACACAACCAGTTCCTATTGCCATCCTGAAGCCTTGAGTCCTGCCCACAACCAATATTCAGGAATGGAG
CTCACTTCCCCTAACATTTTTCACTCTTAGTCTGGACTCAGGGTCAGTCCACATGAGTGGCTGTGGTTTTACT

Alignment

ORF - retro_mdom_847 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.14 %
• Parental protein coverage: 53.37 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  ILWGCELSQENRSYTFDPLED--GDHKLILNM-VCLGEKTKDEPNIVEVIP-PPDENGKKRPPVPIAMLK
          ..WGCELSQE..SYT.DPLED..G.HKLILNM.VCLGE.T..E.N.VE..P...D.N.KK..PVPIA.LK
Retrocopy LFWGCELSQEKCSYTSDPLEDRNGFHKLILNM<VCLGERTREELNVVEMEP<TSDDNNKKTQPVPIAILK

Parental  PSVLPMANI-SGMELTSPVTFHLRSG-SGPVHISGRNLT
          P.VLP..NI.SGMELTSP..FH..SG.SG.VH.SG...T
Retrocopy P*VLPTTNI<SGMELTSPNIFHS*SG>SGSVHMSGCGFT

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	12.52 RPM
SRP007412_cerebellum	0.00 RPM	14.36 RPM
SRP007412_heart	0.00 RPM	2.79 RPM
SRP007412_kidney	0.00 RPM	2.63 RPM
SRP007412_liver	0.00 RPM	2.01 RPM
SRP007412_testis	0.00 RPM	8.84 RPM

ChIP-Seq

Monodelphis domestica was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mdom_847 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_847 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	ENSMODG00000009677	1 retrocopy	retro_mdom_847 ,
Tursiops truncatus	ENSTTRG00000008050	1 retrocopy	retro_ttru_530,