RetrogeneDB ID: retro_mdom_191

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 8:32419831..32420332(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMODG00000025227
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: UPRT
• Ensembl ID: ENSMODG00000027579
• Aliases: None
• Description: uracil phosphoribosyltransferase (FUR1) homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:28334]

Sequence

>retro_mdom_191
ATGAACGACCAGATCCGGGAGCTGCAGACCATCATCCGGGCCAAGACGGCCAGCCGCGGGGACTTCGTATTTTCCGCCGA
CCGTTTGATCCGGCTGGTGGTGGAAGAGGGCCTGAACCAGCTGCCCTACGAGCGGTGTACCGTGACCACGCCGACCGGCC
ACAAGTACGAGGGTATCAGTTTTGAGAAGGGCAACTGCGGTGTGAGCATCATGAGGAGTGGGGAGGCCATGGAGCATGGC
CTGCGCGACTGCTGCCGCTCCATCCGCATCGGCAAGATTCTCATCCAGAGCGACGAGGACACCCAGAGGGCCAAGGTCTA
TTACGCCAAGTTCCCCCCGGACATCGAGCGCAGGAAGGTCCTGCTCATGTACCCCATCCTGAGCACGGGGAACACCGTCA
TCGAGGCCGTGAAGGTCCTCATAGAGCACGGAGTGCAGCCCAGCGTCATCATCGTGCTCAGCCTCTTCTCCACGCCCCAC
GGCGCCACGTCTATCATCCGG

Alignment

ORF - retro_mdom_191 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.62 %
• Parental protein coverage: 55.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  INDQIRELQTIIRDKTASRGDFMFSADRLIRLIVEEGLNQLPYKECTVTTPTGYKYEGVKFEKGNCGVSI
          .NDQIRELQTIIR.KTASRGDF.FSADRLIRL.VEEGLNQLPY..CTVTTPTG.KYEG..FEKGNCGVSI
Retrocopy MNDQIRELQTIIRAKTASRGDFVFSADRLIRLVVEEGLNQLPYERCTVTTPTGHKYEGISFEKGNCGVSI

Parental  MRSGEAMEQGLRDCCRSIRIGKILIQSDEETQRAKVYYAKFPPDIYRRKVLLMYPILSTGNTVIEAIKVL
          MRSGEAME.GLRDCCRSIRIGKILIQSDE.TQRAKVYYAKFPPDI.RRKVLLMYPILSTGNTVIEA.KVL
Retrocopy MRSGEAMEHGLRDCCRSIRIGKILIQSDEDTQRAKVYYAKFPPDIERRKVLLMYPILSTGNTVIEAVKVL

Parental  VEHGVQPSVIIVLSLFSTPHGATSIIR
          .EHGVQPSVIIVLSLFSTPHGATSIIR
Retrocopy IEHGVQPSVIIVLSLFSTPHGATSIIR

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_191 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_191 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000017218	1 retrocopy	retro_cfam_1419,
Monodelphis domestica	ENSMODG00000027579	1 retrocopy	retro_mdom_191 ,
Otolemur garnettii	ENSOGAG00000016773	1 retrocopy	retro_ogar_3365,