RetrogeneDB ID: retro_mmur_431

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_3024:431636..432245(+)
• Located in intron of: ENSMICG00000006913

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC117
• Ensembl ID: ENSMICG00000004228
• Aliases: None
• Description: coiled-coil domain containing 117 [Source:HGNC Symbol;Acc:26599]

Sequence

>retro_mmur_431
GAAGATGATGATTGTCCTGTAAGAAAGAAAAGGCTAATTGAAGCAGAGCTCTGTGCTGGTCCTAATGACTGGATTCTTCG
TGCACATCAGGGTGTGGAGGGTCATGGAGTAAATCCGTGCACTGGTGGCCTTTCTGTACCTGGCATGTTAGATGTTATTT
GTGAAGAAATGGAGCAGACGACTGGAGAACCACAGTGTGAAGTTGCCCGAAGGAGGCTTCAGGAGATTGAGGACAGGATA
ATTGACGAAGATGAAGAAGTTGAAGCTGACAGAAATGTTAATCATCTCCCCAGTCTTGTCCTTTCTGATACCATGAAAAC
TGGTTTGAAGAGGGAATTTGATGAAGTCTTTACGAAGAAAATGATTGAGTCCATGAGCCGTCCTTCCATGGAGCTTGTGC
TCTGGAAACCTCTCCCTGAACTCCTTTCTGATAAGCCAAAGCCATCATCTAATGCTAAGAACTACACAGGAGAGAGCCAA
ACTAAGCATGGAGCTGCTGGCACTGCCTTCCCTCAGAGAACTGAACTGTTCTTAGAACCTCGGCAAACAGGGATGCCTCT
TTACAATAGTTTGGAGACAGCTGCTAACACAGAAGAAGAGATGGAACTC

Alignment

ORF - retro_mmur_431 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.18 %
• Parental protein coverage: 73.36 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EDDDCPVRKKRLIEAELCAGPNDWILCAHQGVEGHGVNPCTSGLSVPGMLDVICEEMDQTTGEPQCEVAR
          EDDDCPVRKKRLIEAELCAGPNDWIL.AHQGVEGHGVNPCT.GLSVPGMLDVICEEM.QTTGEPQCEVAR
Retrocopy EDDDCPVRKKRLIEAELCAGPNDWILRAHQGVEGHGVNPCTGGLSVPGMLDVICEEMEQTTGEPQCEVAR

Parental  RRLQEIEDRIIDEDEEVEADRNVNHLPSLVLSDTMKTGLKREFDEVFTKKMIESXXXXXXXXXXXXXXXX
          RRLQEIEDRIIDEDEEVEADRNVNHLPSLVLSDTMKTGLKREFDEVFTKKMIES................
Retrocopy RRLQEIEDRIIDEDEEVEADRNVNHLPSLVLSDTMKTGLKREFDEVFTKKMIESMSRPSMELVLWKPLPE

Parental  XLSDKPKPSSNAKNYTGESQTKHGAAGTAF--QRELFLEPRQTGMPLYNSLETAANTEEEMEL
          .LSDKPKPSSNAKNYTGESQTKHGAAGTAF....ELFLEPRQTGMPLYNSLETAANTEEEMEL
Retrocopy LLSDKPKPSSNAKNYTGESQTKHGAAGTAFPQRTELFLEPRQTGMPLYNSLETAANTEEEMEL

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_431 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_431 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020088	1 retrocopy	retro_cjac_2465,
Microcebus murinus	ENSMICG00000004228	2 retrocopies	retro_mmur_431 , retro_mmur_914,
Macaca mulatta	ENSMMUG00000007214	1 retrocopy	retro_mmul_2580,
Tursiops truncatus	ENSTTRG00000011845	1 retrocopy	retro_ttru_1174,