RetrogeneDB ID: retro_mmur_1142

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_25258:880..1441(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CLPP
• Ensembl ID: ENSMICG00000006284
• Aliases: None
• Description: ClpP caseinolytic peptidase, ATP-dependent, proteolytic subunit homolog (E. coli) [Source:HGNC Symbol;Acc:2084]

Sequence

>retro_mmur_1142
ATCGATGACAGCGTCGCCAGCCTTGTTATCACGCAGCTGCTGTTCCTGCAGTCGGAGAGCAACAAGAATCCCATCCACAT
GTACATCAACAGCCCTGGTGGCATGGTGACTGCCGGCCTGGCCATCTACGACACGATGCAGTATATCCTGAACCCCATCT
GCACGTGGTGCGTGGGCCAGGCCGCCAGCATGGGATCCCTGCTCCGGGCCGCGGGCAGCCCGGGCATGTGCCACTCGCTG
CCCAACTCCCGCATCATGATCCACCAGCCGTCTGGGGGCGCCCGGGGCCAAGCCACAGACATCACCATCCAGGCGGAGGA
GATCCTGAAGCTCAAGAAGCAGCTCTTCAACATCTACGCCAAGCACACCAGGCAGAGCCTGCAGGTGATCGAGTCGGCCA
TGGAGAGGGACCGCTACATGAGCCCAATGGAGGCCCAGGAGTTCGGCATTTTGGACGAGGTCCTGGTCCACCCTCCCCAG
GACGGTGAGGACGAGCCCTAGCTGGTGCAGAAGGAGCCCGTGGTGGTGGCAACGGTGGCAGAGCCTGTCCCAGCAAGCTC
C

Alignment

ORF - retro_mmur_1142 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.19 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IDDSVASLVIAQLLFLQSESNKKPIHMYINSPGGVVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLLA
          IDDSVASLVI.QLLFLQSESNK.PIHMYINSPGG.VTAGLAIYDTMQYILNPICTWCVGQAASMGSLL.A
Retrocopy IDDSVASLVITQLLFLQSESNKNPIHMYINSPGGMVTAGLAIYDTMQYILNPICTWCVGQAASMGSLLRA

Parental  AGSPGMRHSLPNSRIMIHQPSGGARGQATDIAIQAEEILKLKKQLYNIYAKHTRQSLQVIESAMERDRYM
          AGSPGM.HSLPNSRIMIHQPSGGARGQATDI.IQAEEILKLKKQL.NIYAKHTRQSLQVIESAMERDRYM
Retrocopy AGSPGMCHSLPNSRIMIHQPSGGARGQATDITIQAEEILKLKKQLFNIYAKHTRQSLQVIESAMERDRYM

Parental  SPMEAQEFGILDKVLVHPPQDGEDEPELVQKEPVVVATVAEPVPASS
          SPMEAQEFGILD.VLVHPPQDGEDEP.LVQKEPVVVATVAEPVPASS
Retrocopy SPMEAQEFGILDEVLVHPPQDGEDEP*LVQKEPVVVATVAEPVPASS

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_1142 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1142 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
Callithrix jacchus	ENSCJAG00000016699	1 retrocopy	retro_cjac_2380,
Microcebus murinus	ENSMICG00000006284	1 retrocopy	retro_mmur_1142 ,
Myotis lucifugus	ENSMLUG00000007981	1 retrocopy	retro_mluc_2501,
Xenopus tropicalis	ENSXETG00000005576	1 retrocopy	retro_xtro_53,