RetrogeneDB ID: retro_mmur_1005

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_15775:11773..12706(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CPSF6
• Ensembl ID: ENSMICG00000007385
• Aliases: None
• Description: cleavage and polyadenylation specific factor 6, 68kDa [Source:HGNC Symbol;Acc:13871]

Sequence

>retro_mmur_1005
GCTGGACAGACTCCACCACGTCCACCCTTAGGTCCTCCAGGCCCACCTGGTCCACTAGGTCCTCCCCCTCCTGGTCAGGT
TCTGCCTCCTCCTCTAGCTGGGCCTCCTAATCGAGGAGATTGCCCTCCACCACCAGTTCTTTTTCCTGGACAACCTTTTG
GGCAGCCTCCATTGGGTCCGCTTCCTCCTGGCCCTCCGCCTCCAGTTCCAGGCTACGGCCCCCCTCCTGGTCTACCACCT
CCACAACAGGGACCTCCACCTCCAGGCCCTTTTCCACCTCATCCACCTGGTCCACTTGGGCCACCCCTTACACTTGCTCC
TCCTCCGCATCTTCCTGGACCACCTCCAGGTGCCTCACCACCAGCTCCACGTGTGAACCCGGCTTTCTTTCCTCCACCAA
CTAACAGCAGCACACCAACATCAGATAGCCAAGGTCCACCACCAACAGATCCATATGGCCGACCTCCACCATATGATAGG
GGTGACTGTAGCCCCCCTGGAAGGGAAACGGATACTGCAAGAGCACCATTGAATGAAGCTGAGTTTGAGGAACTCATGAA
TAGAAATAGGGCAATCTCAAGCAGTGCAATTTCAAGAGCTGTGTCTGATGCCAGTGCTGGTGATTATGGGAGTGCTATTG
AGACATTGGTAACTGCAATTTCTTTAATTAAACAATCCAAAGTATCTGCTGATGATCGTTGCAAAGTTCTTATTAGCTCT
TTGCAAGATTGCCTTCATGGAATTGAGTCCAAGTCATATGGTTCTGGATCAAGACGTGAACTATCAAGAGAGAGGGACCA
TAGTAGATCACGAGAAAAAAGTCGACATCATAAATCCCGTAGTAGAGATCGTCATGACGATTATTATATAGAGAGAAGTA
GAGAACGAGAGCGGCACCGGGATCGTGACCGAGACTGTGACCGAGAGCGAGAG

Alignment

ORF - retro_mmur_1005 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.42 %
• Parental protein coverage: 54.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AGQTPPRPPLGPPGPPGPPGPPPPGQVLPPPLAGPPNRGDRPPPPVLFPGQPFGQPPLGPLPPGPPPPVP
          AGQTPPRPPLGPPGPPGP.GPPPPGQVLPPPLAGPPNRGD.PPPPVLFPGQPFGQPPLGPLPPGPPPPVP
Retrocopy AGQTPPRPPLGPPGPPGPLGPPPPGQVLPPPLAGPPNRGDCPPPPVLFPGQPFGQPPLGPLPPGPPPPVP

Parental  GYGPPPGPPPPQQGPPPPPGPFPPRPPGPLGPPLTLAPPPHLPGPPPGAPPPAPHVNPAFFPPPTNSGMP
          GYGPPPG.PPPQQG.PPPPGPFPP.PPGPLGPPLTLAPPPHLPGPPPGA.PPAP.VNPAFFPPPTNS..P
Retrocopy GYGPPPGLPPPQQG-PPPPGPFPPHPPGPLGPPLTLAPPPHLPGPPPGASPPAPRVNPAFFPPPTNSSTP

Parental  TSDSRGPPPTDPYGRPPPYDRGDYGPPGREMDTARTPLSEAEFEEIMNRNRAISSSAISRAVSDASAGDY
          TSDS.GPPPTDPYGRPPPYDRGD..PPGRE.DTAR.PL.EAEFEE.MNRNRAISSSAISRAVSDASAGDY
Retrocopy TSDSQGPPPTDPYGRPPPYDRGDCSPPGRETDTARAPLNEAEFEELMNRNRAISSSAISRAVSDASAGDY

Parental  GSAIETLVTAISLIKQSKVSADDRCKVLISSLQDCLHGIESKSYGSGSRRERSRERDHSRSREKSRRHKS
          GSAIETLVTAISLIKQSKVSADDRCKVL............SKSYGSGSRRE.SRERDHSRSREKSR.HKS
Retrocopy GSAIETLVTAISLIKQSKVSADDRCKVLXXXXXXXXXXXXSKSYGSGSRRELSRERDHSRSREKSRHHKS

Parental  RSRDRHDDYYRERSRERERHRDRDRDRDRERD
          RSRDRHDDYY.ERSRERERHRDRDRD.DRER.
Retrocopy RSRDRHDDYYIERSRERERHRDRDRDCDRERE

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_1005 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1005 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000007385	1 retrocopy	retro_mmur_1005 ,
Myotis lucifugus	ENSMLUG00000004172	3 retrocopies	retro_mluc_2155, retro_mluc_2238, retro_mluc_2588,
Monodelphis domestica	ENSMODG00000007123	1 retrocopy	retro_mdom_1019,