RetrogeneDB ID: retro_mmur_844

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_109198:577..1286(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000011655
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CASP6
• Ensembl ID: ENSMICG00000010297
• Aliases: None
• Description: caspase 6, apoptosis-related cysteine peptidase [Source:HGNC Symbol;Acc:1507]

Sequence

>retro_mmur_844
TTCTGGCACTTGACGCTGCCGGAGAGGCGGGGCTCGAGCGCCGACAGGGACAACCTCACCCGCAGGTTTTCAGACCTAGG
ATTTGAGGTGAAATGCTTTAATGATCTCAAAGCAGAAGAACTACTGCTCAGAATTCACGAGGCGTCAACTTCTAGTCACG
CAGACGCTGACTGCTTTTTGTGCGTCTTCCTGAGCCACGGCGAAGGCAATCACGTTTACGCCTATGACGCCAAAATTGAA
ATTCAGACCCTGACTGGCTTGTTCAAAGGAGACAAGTGTCAGAGCCTGGTTGGAAAACCCAAGATATTTATCATTCAGGC
ATGTCGGGGAAACCAGCATGACGTGCCCGTCCTTCCTTTGGATGAAGTGGATCATCAGACTGACAAGCTGGACACCAACG
TAACGGAGGTGGACGCAGCCTCAGTTTACACGCTGCCTGCCGGGGCAGACTTCCTCATGTGCTACTCGGTTGACGAAGGC
TATTATTCTCACCGGGAAACTGTGATGGGTTCGTGGTACATTCAAGATTTGTGTGAGATGTTGGGGAAATACGGCTCCTC
CTTGGAGTTCACAGAGCTGCTCACACTGGTGAACAGGAAAGTGTCTCGGCGCCGAGTGGACTTCTGCAAGGACCCAAGTG
CAATTGGAAAGAAGCAGGTTCCCCTGCTTTGCCTCCATGCTAACTAAAAAGCTGCATTTCTTTCCAAAA

Alignment

ORF - retro_mmur_844 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.31 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FWHLTLPERRGSSADRDNLTRRFSDLGFEVKCFNDLKAEELLLKIHEVSTSSHADADCFLCVFLSHGEGN
          FWHLTLPERRGSSADRDNLTRRFSDLGFEVKCFNDLKAEELLL.IHE.STSSHADADCFLCVFLSHGEGN
Retrocopy FWHLTLPERRGSSADRDNLTRRFSDLGFEVKCFNDLKAEELLLRIHEASTSSHADADCFLCVFLSHGEGN

Parental  HVYAYDAKIEIQTLTGLFKGDKCQSLVGKPKIFIIQACRGNQHDVPVLPLDEVDHQTDKLDTNVTEVDAA
          HVYAYDAKIEIQTLTGLFKGDKCQSLVGKPKIFIIQACRGNQHDVPVLPLDEVDHQTDKLDTNVTEVDAA
Retrocopy HVYAYDAKIEIQTLTGLFKGDKCQSLVGKPKIFIIQACRGNQHDVPVLPLDEVDHQTDKLDTNVTEVDAA

Parental  SVYTLPAGADFLMCYSVAEGYYSHRETVMGSWYIQDLCEMLGKYGSSLEFTELLTLVNRKVSRRRVDFCK
          SVYTLPAGADFLMCYSV.EGYYSHRETVMGSWYIQDLCEMLGKYGSSLEFTELLTLVNRKVSRRRVDFCK
Retrocopy SVYTLPAGADFLMCYSVDEGYYSHRETVMGSWYIQDLCEMLGKYGSSLEFTELLTLVNRKVSRRRVDFCK

Parental  DPSAIGKKQV-PCFASMLTKKLHFFPK
          DPSAIGKKQV.PCFASMLTKKLHFFPK
Retrocopy DPSAIGKKQV>PCFASMLTKKLHFFPK

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_844 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_844 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000002727	1 retrocopy	retro_lafr_291,
Microcebus murinus	ENSMICG00000004809	2 retrocopies	retro_mmur_1389, retro_mmur_691,
Microcebus murinus	ENSMICG00000010297	2 retrocopies	retro_mmur_709, retro_mmur_844 ,
Monodelphis domestica	ENSMODG00000005948	1 retrocopy	retro_mdom_1854,
Vicugna pacos	ENSVPAG00000009840	1 retrocopy	retro_vpac_431,