RetrogeneDB ID: retro_mdom_875

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 2:261670977..261672293(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMODG00000007985
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ESRRG
• Ensembl ID: ENSMODG00000004163
• Aliases: None
• Description: estrogen-related receptor gamma [Source:HGNC Symbol;Acc:3474]

Sequence

>retro_mdom_875
CTTCTCTGCAGAATGTCAAGCAAAGATCGACACATTGATTCTAGCTGTTCGTCATATATCAAGACGGAACCCTCAAGCGC
TGCCTCCTTAAAGGACAGCATCAACCACCACAGCCCTGGTGGCTCTTCAGACGCCAGCAGGAGCTATAGTTCAACCATGA
ATGGCCATCAGAATGGACTTGACTCACCACCTCTGTACCCTTCTGCCCCGGTCCTTGGAGGTAATGGGCCTGTCAGGAAA
CGATACGATGATTGTTCGAGCACCATTGCAGAAGATTCGCAGACCAAGTGTGAATACATGCTGAACTCGATGCCCAAGAG
ACTGTGTTTGGTGTGTGGCGATATTGCATCTGGGTACCACTATGGGGTAGCATCATGTGAAGCCTGCAAAGCCTTCTTCA
AGAGGACAATTCAAGGTAATATAGAATACAGCTGCCCAGTCACAAATGAATGTGAAATCACAAAGCGCAGACGCAAATCC
TGCCAGGCCTGCCGTTTCATGAAATGTCTAAAAGTTGGCATGCTGAAGGAAGGGGTGCGTCTTGATAGAGTACGTGGAGG
TCGCCAAAAGTACAAACGCAGAATAGATGCAGAGAACAGCCCATACCTGAACCCTCAGCTCGTTCAACCAGCTAAAAAGC
CATATAACAAGATTGTCTCACATTTGCTGGTGGCTGAACCGGAGAAGATCTATGCCATGCCTGACCCTACTGTTCCAGAC
AGTGACATCAAAGCTCTAACTACTCTCTGTGACCTGGCTGATAGAGAACTGGTGGTCATCACTGGATGGGCTAAACATAT
TCCAGGTTTCTCTACTTTGTCTTTGGCTGATCAGATGAGCCTTCTGCAAAGTTCTTGGATGGAGATTTTGATCCTTGGGG
TTGTATACCGATCACTTTCTTTTGAGGATGAACTTGTCTATGCAGAAGATTATATTATGGATGAAGATCAGTCCAAATTA
GCAGGCCTCCTTGACCTCAACAATGCCATCCTGCAGCTGGTAAAGAAATATAAGAGCATGAAGCTGGAGAAAGAAGAGTT
TGTCACCCTCAAAGCTATAGCGCTGCTAATTCAGATTCAATGCACATAGAAGATGTTGAAGCAGTTCAGAAACTTCAAGA
CGTCTTACATGAGGCTCTTCAGGATTACGAGGCTGGCCAGCACATGGAAGACCCTCGTCGGGCCGGCAAGATGTTGATGA
CTCTCCCGCTTCTGAGGCAAACCTCTACCAAGGCTGTGCAGCATTTCTACAACATAAAATTGGAAGGCAAAGTTCCTATG
CACAAACTTTTTTTGGAAATGCTGGAGGCCAAGGTC

Alignment

ORF - retro_mdom_875 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.41 %
• Parental protein coverage: 95.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LLCRMSSKDRHIDSSCSSYIKTEPSSPASLTDSINHHSPGGSSDASGSYSSTMNGHQNGLDSPPLYPSAP
          LLCRMSSKDRHIDSSCSSYIKTEPSS.ASL.DSINHHSPGGSSDAS.SYSSTMNGHQNGLDSPPLYPSAP
Retrocopy LLCRMSSKDRHIDSSCSSYIKTEPSSAASLKDSINHHSPGGSSDASRSYSSTMNGHQNGLDSPPLYPSAP

Parental  VLGGNGPVRKRYDDCSSTIAEDSQTKCEYMLNSMPKRLCLVCGDIASGYHYGVASCEACKAFFKRTIQGN
          VLGGNGPVRKRYDDCSSTIAEDSQTKCEYMLNSMPKRLCLVCGDIASGYHYGVASCEACKAFFKRTIQGN
Retrocopy VLGGNGPVRKRYDDCSSTIAEDSQTKCEYMLNSMPKRLCLVCGDIASGYHYGVASCEACKAFFKRTIQGN

Parental  IEYSCPATNECEITKRRRKSCQACRFMKCLKVGMLKEGVRLDRVRGGRQKYKRRIDAENSPYLNPQLVQP
          IEYSCP.TNECEITKRRRKSCQACRFMKCLKVGMLKEGVRLDRVRGGRQKYKRRIDAENSPYLNPQLVQP
Retrocopy IEYSCPVTNECEITKRRRKSCQACRFMKCLKVGMLKEGVRLDRVRGGRQKYKRRIDAENSPYLNPQLVQP

Parental  AKKPYNKIVSHLLVAEPEKIYAMPDPTVPDSDIKALTTLCDLADRELVVIIGWAKHIPGFSTLSLADQMS
          AKKPYNKIVSHLLVAEPEKIYAMPDPTVPDSDIKALTTLCDLADRELVVI.GWAKHIPGFSTLSLADQMS
Retrocopy AKKPYNKIVSHLLVAEPEKIYAMPDPTVPDSDIKALTTLCDLADRELVVITGWAKHIPGFSTLSLADQMS

Parental  LLQSAWMEILILGVVYRSLSFEDELVYAEDYIMDEDQSKLAGLLDLNNAILQLVKKYKSMKLEKEEFVTL
          LLQS.WMEILILGVVYRSLSFEDELVYAEDYIMDEDQSKLAGLLDLNNAILQLVKKYKSMKLEKEEFVTL
Retrocopy LLQSSWMEILILGVVYRSLSFEDELVYAEDYIMDEDQSKLAGLLDLNNAILQLVKKYKSMKLEKEEFVTL

Parental  KAIAL-ANSDSMHIEDVEAVQKLQDVLHEALQDYEAGQHMEDPRRAGKMLMTLPLLRQTSTKAVQHFYNI
          KAIAL.ANSDSMHIEDVEAVQKLQDVLHEALQDYEAGQHMEDPRRAGKMLMTLPLLRQTSTKAVQHFYNI
Retrocopy KAIAL<ANSDSMHIEDVEAVQKLQDVLHEALQDYEAGQHMEDPRRAGKMLMTLPLLRQTSTKAVQHFYNI

Parental  KLEGKVPMHKLFLEMLEAKV
          KLEGKVPMHKLFLEMLEAKV
Retrocopy KLEGKVPMHKLFLEMLEAKV

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_875 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_875 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000004163	1 retrocopy	retro_mdom_875 ,