RetrogeneDB ID: retro_mmur_914

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_127742:162..817(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000006715
• Aliases: None
• Status: KNOWN_PSEUDOGENE

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_914
GGACGCTCCTCCGTTCGCTGTAAAAAGAAACACAAGCGAGAGGAGGAAGATGATGATTGTCCTGTAAGAAAGAAAAGGCT
AATTGAAGCAGAGCTCTGTGCTGTCCCTAATGACTGGATTCTTCGTGCACATCAGGGTGTGGAGGGTCATATGAGTAAAT
CCGTGCACTGGTGGCCTTTCTGTACCTGGCATGTTAGATGTTATTTGTGAGAGAAATGGAGCTAGACGACTGGAGAACCA
CAGTGTGAAGTTGCCCGAAGGAGCTTCAGAGATTGAGGACAGGATAATTGACGAAGATGAAGAAGTTGAAGCTGACAGAA
ATGTTAATAATCTCCCCAGTCTTGTCCTTTCTGATACCATGAAAACTGGTTTGAAGAGGGAATTTGATGAAGTCTTTACA
AAGAAAATGATTGAGTCCATGAGCCATCCTTCCATGGAGCTTGTGCTCTGGAAACCTCTCCCTGAACTCCTTTCTGATAA
GCCAAAGCCATCATCTAATGCTAAGAACTACACAGGAGAGAGCCAAACTAAGCATGGAGCTGCTGGCACTGCCTTCCCTC
AGAGAACTGAATTGTTCTTAGAACCTCGGCAAACAGGGATGCCTCTTTACAATAGTTTGGAGACAGCTGCTAACACAGAA
GAAGAGATGGAACTC

Alignment

ORF - retro_mmur_914 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.86 %
• Parental protein coverage: 78.83 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  GRVSVRCKKKHKREEEDDDCPVRKKRLIEAELCAGPNDWILCAHQGVEGHG-VNPCTSGLSVPGMLDVIC
          GR.SVRCKKKHKREEEDDDCPVRKKRLIEAELCA.PNDWIL.AHQGVEGH..VNPCT.GLSVPGMLDVIC
Retrocopy GRSSVRCKKKHKREEEDDDCPVRKKRLIEAELCAVPNDWILRAHQGVEGHM>VNPCTGGLSVPGMLDVIC

Parental  E-EMDQ-TTGEPQCEVAR-RRLQ-EIEDRIIDEDEEVEADRNVNHLPSLVLSDTMKTGLKREFDEVFTKK
          E.EM...TTGEPQCEVAR...LQ.EIEDRIIDEDEEVEADRNVN.LPSLVLSDTMKTGLKREFDEVFTKK
Retrocopy E>EMEL>TTGEPQCEVAR<KELQ<EIEDRIIDEDEEVEADRNVNNLPSLVLSDTMKTGLKREFDEVFTKK

Parental  MIESXXXXXXXXXXXXXXXXXLSDKPKPSSNAKNYTGESQTKHGAAGTAF--QRELFLEPRQTGMPLYNS
          MIES.................LSDKPKPSSNAKNYTGESQTKHGAAGTAF....ELFLEPRQTGMPLYNS
Retrocopy MIESMSHPSMELVLWKPLPELLSDKPKPSSNAKNYTGESQTKHGAAGTAFPQRTELFLEPRQTGMPLYNS

Parental  LETAANTEEEMEL
          LETAANTEEEMEL
Retrocopy LETAANTEEEMEL

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_914 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_914 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,