RetrogeneDB ID: retro_mmur_131

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_1388:40308..40913(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARL14EP
• Ensembl ID: ENSMICG00000011547
• Aliases: None
• Description: ADP-ribosylation factor-like 14 effector protein [Source:HGNC Symbol;Acc:26798]

Sequence

>retro_mmur_131
TGCTTTCATTGTGTAAAAATTACATCTATAGATTTGAGGACTTGCAAAAGTCCTGTTGAAACCCATTTAACAGACACAAA
AAGCTAGCCCCCCAAATTTGCATGTAATTGAGTTAGATGATGACACTTTTCTGAATGCGAAATCTGGAAGACAGCTTTTA
CCTGGTTGGAAGCTTTGTCCAAATTGCATGCAGATAATCAGTGGAAGTGTGGGTGTTGATTCTGAAGACCACCAGAGAAG
AAAATCTTAAACAGATGGAAGAATTGCTAAAAGCTTTGAGGTCATTACAATTTACAAATCCAAGACAACAAACTACATTT
GCTCCAGAAACTGGTAAAAGAGAAAAAAGAAGGCTTACAAAAACTGTGACCATTGGTTCAGAGAGACAGTGGTATTGGCA
AAGAGTAAGGTGTATGACAGCCAGGGTCTCCTGATTTTCAGTGGGATGGACCCCTGTGACTGCCTTGATGAAGATGGCTT
AGGATGTTTCTGTGCTTGTCCTGCTGTGGTTCTACCAAATGTGGAGCTGAAGGAGCTGTGATTGCAAGTAGCTGTATAAT
GAGCAAATAAAAATTGAAGGAGGAGAAATAATTCATAATAAACAT

Alignment

ORF - retro_mmur_131 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.99 %
• Parental protein coverage: 77.69 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  CFHHVKI-YIDRFEDLQKSCCDPFNIHKKLAKK-NLHVIDLDDATFLSAKFGRQLVPGWKLCPKCTQIIN
          CFH.VKI.YI.RFEDLQKSC..PFN.HKKLA...NLHVI.LDD.TFL.AK.GRQL.PGWKLCP.C.QII.
Retrocopy CFHCVKI<YIYRFEDLQKSC*NPFNRHKKLAPQ<NLHVIELDDDTFLNAKSGRQLLPGWKLCPNCMQIIS

Parental  GSVDVDAEDRQRRKPESDGRTAK-ALRSLQFTNPGKQTEFAPETGKREKRRLTKNATTGSDRQ-VIPAKS
          GSV.VD.ED.QRRK...DGR.AK.ALRSLQFTNP..QT.FAPETGKREKRRLTK..T.GS.RQ.V..AKS
Retrocopy GSVGVDSEDHQRRKS*TDGRIAK>ALRSLQFTNPRQQTTFAPETGKREKRRLTKTVTIGSERQ<VVLAKS

Parental  KVYDSQGLLIFSGMDLCDCLDEDCLGCFYACPA-CGSTKCGAE-CRCDRKWLY-EQIEIEGGEIIHNKH
          KVYDSQGLLIFSGMD.CDCLDED.LGCF.ACPA.CGSTKCGAE...CD.K.LY.EQI.IEGGEIIHNKH
Retrocopy KVYDSQGLLIFSGMDPCDCLDEDGLGCFCACPA<CGSTKCGAE<RSCDCK*LYNEQIKIEGGEIIHNKH

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_131 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_131 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012417	1 retrocopy	retro_btau_1266,
Choloepus hoffmanni	ENSCHOG00000012698	1 retrocopy	retro_chof_1155,
Felis catus	ENSFCAG00000028620	1 retrocopy	retro_fcat_437,
Microcebus murinus	ENSMICG00000011547	2 retrocopies	retro_mmur_1003, retro_mmur_131 ,
Macaca mulatta	ENSMMUG00000017590	2 retrocopies	retro_mmul_1793, retro_mmul_984,
Mus musculus	ENSMUSG00000027122	1 retrocopy	retro_mmus_3319,