RetrogeneDB ID: retro_mmur_972

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_14643:35078..35714(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MED20
• Ensembl ID: ENSMICG00000011326
• Aliases: None
• Description: mediator complex subunit 20 [Source:HGNC Symbol;Acc:16840]

Sequence

>retro_mmur_972
ATGGGAGTGACTTGTGTGTCTCAGATGCCCGTGGCTGAGGGCAAGAGTGTCCAGCAGACTGTGGAGCTCCTCACTCGGAA
ATTGGAGATACTTGGAGCAGAGAAGCAAGGAACATTTTGTGTGGACTGTGAGACTTACCATACAGCTGCATCTACCCTTG
GCAGCCAAGGTCAGGCCGGGAAGCTGATGTATGTGATGCACAACTCAGAGTACCCATTGAGCTGTTTTGCCCTCTTTGAA
AATGGCCCTTGCCTTATTGCCGACACCAACTTCGATGTGCTCATGGTGAAGCTCAAGTGCTTTTTCTAGAGTGCTAAGGC
CAGCAAGATTGAGACTCGGGGCACCCGTTACCAGTACTGTGACTTCCTGGTGAAGGTGGGCACGGTCACAATGGGGCCCA
GTGCCCGGGGCATCTCTGTGGAGGTGGAGTATGGCCCCTGTGTGGTAGCTAGTGACTGCTGGAGCCTGCTGCTTGAGCTC
CTACAGAGTTTTCTAGGCAGTCACACACCAGGGGCTCCTGCAGTGTTTGGGAACAGACATGACTCGGTCTACGGCCCAGC
AGATACCATGGTCCAGTACATGGAACTCTTCAACAAGATCCGCAAGCAGCAGCAGGTGCCAGTGGCTGGGATTCGT

Alignment

ORF - retro_mmur_972 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.58 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGVTCVSQMPVAEGKSVQQTVELLTRKLEILGAEKQGTFCVDCETYHTAASTLGSQGQAGKLMYVMHNSE
          MGVTCVSQMPVAEGKSVQQTVELLTRKLEILGAEKQGTFCVDCETYHTAASTLGSQGQAGKLMYVMHNSE
Retrocopy MGVTCVSQMPVAEGKSVQQTVELLTRKLEILGAEKQGTFCVDCETYHTAASTLGSQGQAGKLMYVMHNSE

Parental  YPLSCFALFENGPCLIADTNFDVLMVKLKGFFQSAKASKIETRGTRYQYCDFLVKVGTVTMGPSARGISV
          YPLSCFALFENGPCLIADTNFDVLMVKLK.FF.SAKASKIETRGTRYQYCDFLVKVGTVTMGPSARGISV
Retrocopy YPLSCFALFENGPCLIADTNFDVLMVKLKCFF*SAKASKIETRGTRYQYCDFLVKVGTVTMGPSARGISV

Parental  EVEYGPCVVASDCWSLLLEFLQSFLGSHTPGAPAVFGNRHDSVYGPADTMVQYMELFNKIRKQQQVPVAG
          EVEYGPCVVASDCWSLLLE.LQSFLGSHTPGAPAVFGNRHDSVYGPADTMVQYMELFNKIRKQQQVPVAG
Retrocopy EVEYGPCVVASDCWSLLLELLQSFLGSHTPGAPAVFGNRHDSVYGPADTMVQYMELFNKIRKQQQVPVAG

Parental  IR
          IR
Retrocopy IR

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_972 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_972 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001613	1 retrocopy	retro_cfam_1492,
Dasypus novemcinctus	ENSDNOG00000016666	1 retrocopy	retro_dnov_533,
Microcebus murinus	ENSMICG00000011326	1 retrocopy	retro_mmur_972 ,
Myotis lucifugus	ENSMLUG00000014024	1 retrocopy	retro_mluc_2117,