RetrogeneDB ID: retro_mmur_666

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_4558:271402..271900(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TAGLN
• Ensembl ID: ENSMICG00000002371
• Aliases: None
• Description: transgelin [Source:HGNC Symbol;Acc:11553]

Sequence

>retro_mmur_666
ATGGCCAACAGGGGACCTTCGTATGGTCTGAGCCGGGAGGTGCAGCAGAAGATTGAGAAACAGTATGATGCAGACCTGGA
GCAGGTCTTGATCCAGTGGATCACCGCCCAGTGCCAAAAAGATGTGGGCCGGCCCCAGCCTGGGCGTGAGAACTTCCAGA
ACTGGCTTAAGGATGGCACGGTGCTGTGTGAGCTCATTAATGGACTGTACCCCGAGGGGCAGGCCCCAGTAAAGAAGATC
CAGGCCTCCACCATGGCCTTCAAGCAGATGGAGCAGATCTCTCAATTCCTACAAGCGGCTGAGCGCTACGGCATTAACAC
CACTGACATCTTCCAAACTGTGGACCTCTGGGAAGGAAAGAACATGGGCTGTGTGCAGCGGACCCTGTTGAACCTGGGTG
GGCTGGCGGTAGCTCGGGATGATGGGCTCTTCTCTGGGGATCCCAATTGGTTCCCTAAGAAATCCAAGGAGAACCCGCGG
AACTTCTCAGACAACCAG

Alignment

ORF - retro_mmur_666 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.88 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MANKGPSYGMSREVQSKIEKKYDEELEERLVEWIVVQCGPDVGRPDRGRLGFQVWLKNGVILSKLVNSLY
          MAN.GPSYG.SREVQ.KIEK.YD..LE..L..WI..QC..DVGRP..GR..FQ.WLK.G..L..L.N.LY
Retrocopy MANRGPSYGLSREVQQKIEKQYDADLEQVLIQWITAQCQKDVGRPQPGRENFQNWLKDGTVLCELINGLY

Parental  PDGSKPVKVPENPPSMVFKQMEQVAQFLKAAEDYGVTKTDMFQTVDLFEGKDMAAVQRTLMALGSLAVTK
          P.G..PVK.......M.FKQMEQ..QFL.AAE.YG...TD.FQTVDL.EGK.M..VQRTL..LG.LAV..
Retrocopy PEGQAPVKKIQ-ASTMAFKQMEQISQFLQAAERYGINTTDIFQTVDLWEGKNMGCVQRTLLNLGGLAVAR

Parental  NDGHYRGDPNWFMKKAQEHKREFTESQ
          .DG...GDPNWF.KK..E..R.F...Q
Retrocopy DDGLFSGDPNWFPKKSKENPRNFSDNQ

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_666 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_666 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012755	2 retrocopies	retro_cjac_723, retro_cjac_778,
Microcebus murinus	ENSMICG00000002371	1 retrocopy	retro_mmur_666 ,
Oryctolagus cuniculus	ENSOCUG00000011970	1 retrocopy	retro_ocun_116,