RetrogeneDB ID: retro_mdom_1757

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 7:249490547..249492209(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMODG00000015833
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MORC2
• Ensembl ID: ENSMODG00000009557
• Aliases: None
• Description: MORC family CW-type zinc finger 2 [Source:HGNC Symbol;Acc:23573]

Sequence

>retro_mdom_1757
TATGCAGAGTACCGAGAGAACCTCCAGGGAGGCTTCATGCTCTGCTTTCTGGATGACGGCACGGGAATGGATCCTAGTGA
CGCTGCCAGCGTGATACAGTTTGGGAAATCAGCCAAGCGGACCCCCGAATCCACACAGATCGGGCAGTACGGCAACGGCT
TAAAATCGGGATCCATGCGTATTGGGAAGGATTTTATTCTCTTCACCAAAAAGGACGATACCATGACCTGCCTCTTCTTG
TCTCGGACATTTCACGAGGAGGAAGGCATCGACGAAGTCATCGTCCCACTACCCACTTGGAATGCCCGGACTCGCCTGCC
CATTACAGAAAATATGGACAAGTTCTCCACTGAAATCGAGCTCATCTATAAGTATTCACCCTTCAAATCAGAGCAGCAAG
TAATGGACCAATTTAAGAAGATCTCTGGGGAGATGGGAACCCTGGTTATCATCTTTAATCTCAAACTCACAGACAACGGC
GAACCTGAGCTGGACATTGTCTCAGACCCCTGGGACATCCAGATGGCGGAGACATCCCTGGAGGGCACGAAGCCGGAGCA
CCGCTCTTTCCGAGCCTACGCGGCAGTCCTTTACATTGACCCGAGAATGAGAATATTCATCCACGGCCACAAGGTGCAGA
CCAAGAGGCTCTCCTGCTGCTTGTATAAGCCCAGGATGTACAAGTACACCTCCAACCGCTTCAAGACAAGAGCGGAACAG
GAGGTAAAGAAAGCGGAGCACGTGGCCCGCATAGCAGAAGACAAGGCTCGTGAGGCGGAGAACAAAGCCAGAGTGTTAGA
ACTGAGACTGGGAGGAGACCTCACTCGGGAATCCAGGGTAGCCTTAAGGCAGGTTCAGGGCACAGCTATTAACTTGCGCA
GGGAAGCTGGCATCAAGAAGTGCATCAGAGAAGCTAAACAGCGGGCCTTAAAGGAACCTAAGGAACTGAACTTCGTCTTT
GGGGTGAACATCGAACAGCGGCACCTGGATGGCATGTTTATATACAATTGTAGTCGCCTGATTAAGATGTATGAGAAGGT
GGGTCCTCAGCTAGAGGGCGGCATGGCCTGTGGCGGGGTAGTTGGGGTGGTGGACGTGCCTTATCTGGTCCTGGAGCCCA
CCCATAACAAGCAAGACTTTGCTGACGCCAAGGAGTACCGTCATCTGCTGAAAGCCATGGGCGATCACTTGACCCAGTAC
TGGAAGGACGTGGCCATCGCCCAGCGGGGAATCATTAAGTTTTGGGATGAGTTTGGCTATCTCTCGGCCAACTGGAGCCA
GCCCCCATCCAAAGAGCTTCGTTATAAACGCAGGAGGGCAATGGAGATTCCCACCACCATCCAGTGTGATCTGTGTCTGA
AGTGGCGGACACTGCCCTTCCAGCTGAGCTCGGTGGAGAGGGACTACCCCGATACGTGGGTGTGCACAATGAATCCCGAC
GCTGAGCAAGACAGCTGCAATGTGTCTGAGCAGAAGCAAAAGGTGCCCCTCGGCATTCTGAAGAAGGACTTAAAGACCCA
AGAGGAGAAGCAGAAACAGCTGACCGAGAAGATCCGGCAAAAGCAGGAGAGACTGGAGGCTCTGCAGAAAACCATCCCTA
TCAGATCCCAAGCTGACCTGAAGAAGTTGCCCCTGGAAGTGAGCTGCAGGCCAGCGATGAAG

Alignment

ORF - retro_mdom_1757 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.13 %
• Parental protein coverage: 56.59 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FTEHRENLQGGFMLCFLDDGAGMDPSDAASVIQFGKSAKRTPESTQIGQYGNGLKSGSMRIGKDFILFTK
          ..E.RENLQGGFMLCFLDDG.GMDPSDAASVIQFGKSAKRTPESTQIGQYGNGLKSGSMRIGKDFILFTK
Retrocopy YAEYRENLQGGFMLCFLDDGTGMDPSDAASVIQFGKSAKRTPESTQIGQYGNGLKSGSMRIGKDFILFTK

Parental  KDDTMTCLFLSRTFHEEEGIDEVIVPLPTWNARTRLPITENMDKFSTEIELIYKYSPFKSEQQVMDQFKK
          KDDTMTCLFLSRTFHEEEGIDEVIVPLPTWNARTRLPITENMDKFSTEIELIYKYSPFKSEQQVMDQFKK
Retrocopy KDDTMTCLFLSRTFHEEEGIDEVIVPLPTWNARTRLPITENMDKFSTEIELIYKYSPFKSEQQVMDQFKK

Parental  ISGDSGTLVIIFNLKLTDNGEPELDIMSDPRDIQMAETSPEGTKPERRSFRAYAAVLYIDPRMRIFIHGH
          ISG..GTLVIIFNLKLTDNGEPELDI.SDP.DIQMAETS.EGTKPE.RSFRAYAAVLYIDPRMRIFIHGH
Retrocopy ISGEMGTLVIIFNLKLTDNGEPELDIVSDPWDIQMAETSLEGTKPEHRSFRAYAAVLYIDPRMRIFIHGH

Parental  KVQTKRLSCCLYKPRMYKYTSNRFKTRAEQEVKKAEHVARIAEDKAREAENKARALELRLGGDLTRESRV
          KVQTKRLSCCLYKPRMYKYTSNRFKTRAEQEVKKAEHVARIAEDKAREAENKAR.LELRLGGDLTRESRV
Retrocopy KVQTKRLSCCLYKPRMYKYTSNRFKTRAEQEVKKAEHVARIAEDKAREAENKARVLELRLGGDLTRESRV

Parental  ALRQVQGTAINLRREADIKKRIREAKQRALKEPKELNFVFGVNIEQRDLDGMFIYNCSRLIKMYEKVGPQ
          ALRQVQGTAINLRREA.IKK.IREAKQRALKEPKELNFVFGVNIEQR.LDGMFIYNCSRLIKMYEKVGPQ
Retrocopy ALRQVQGTAINLRREAGIKKCIREAKQRALKEPKELNFVFGVNIEQRHLDGMFIYNCSRLIKMYEKVGPQ

Parental  LEGGMACGGVVGVVDVPYLVLEPTHNKQDFADAKEYRHLLKAMGEHLAQYWKDVAIAQRGIIKFWDEFGY
          LEGGMACGGVVGVVDVPYLVLEPTHNKQDFADAKEYRHLLKAMG.HL.QYWKDVAIAQRGIIKFWDEFGY
Retrocopy LEGGMACGGVVGVVDVPYLVLEPTHNKQDFADAKEYRHLLKAMGDHLTQYWKDVAIAQRGIIKFWDEFGY

Parental  LSANWSQPPSSELRYKRRRAMEIPTTIQCDLCLKWRTLPFQLSSVERDYPDTWVCTMNPDAEQDSCSASE
          LSANWSQPPS.ELRYKRRRAMEIPTTIQCDLCLKWRTLPFQLSSVERDYPDTWVCTMNPDAEQDSC..SE
Retrocopy LSANWSQPPSKELRYKRRRAMEIPTTIQCDLCLKWRTLPFQLSSVERDYPDTWVCTMNPDAEQDSCNVSE

Parental  QKQKVPLGTLKKDFKSQEEKQKQLTEKIRQQQERLEALQKTVPIRSPADLKKLPLEVSGRPAME
          QKQKVPLG.LKKD.K.QEEKQKQLTEKIRQ.QERLEALQKT.PIRS.ADLKKLPLEVS.RPAM.
Retrocopy QKQKVPLGILKKDLKTQEEKQKQLTEKIRQKQERLEALQKTIPIRSQADLKKLPLEVSCRPAMK

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_1757 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_1757 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000006442	1 retrocopy	retro_cpor_17,
Monodelphis domestica	ENSMODG00000009557	1 retrocopy	retro_mdom_1757 ,
Mus musculus	ENSMUSG00000034543	1 retrocopy	retro_mmus_49,
Otolemur garnettii	ENSOGAG00000009971	2 retrocopies	retro_ogar_2044, retro_ogar_282,
Rattus norvegicus	ENSRNOG00000019624	1 retrocopy	retro_rnor_412,