RetrogeneDB ID: retro_mmur_402

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_284:212286..213585(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TACC3
• Ensembl ID: ENSMICG00000008141
• Aliases: None
• Description: transforming, acidic coiled-coil containing protein 3 [Source:HGNC Symbol;Acc:11524]

Sequence

>retro_mmur_402
CCTCCTGTTACAAGCCCTGAAGCAGCATGTGGAGTGCCCCTGGCAGACCTTCCTGGCGAGGCCCTGGCCCCCCCTGAGAG
TGTGGGCACCCCCAGGCCCCTGCCGGCTGGCAGGGCCACAAGCCCAACCTCCGGTCCTGGGGCCGTGGAGGACTCAAGTC
TGAGCCCGCAGCTGCGTCCAGCCTCAGTGGAGGACACACCTGTGGCGCAGATGGCAGCTGAGACCCCAAGCACAGAGGGC
AAGGAGGGAAACTGGAATTCTTCGGGCACATCGGTTCCCACGAGCTGTCCAGGCAGTGAGGCAGTGCCCCCAACTCAGCA
GGGGCCAGAGCCTGCCTTGGAACCGAAGGAGGAGAGCTTCAGAGACCCTGCAGAGGTTCTAGGCACAGGGGCCGACATAG
ATTACCTGGAGCAGTTTGGAACTTCCTCGTTTAAGGAGTCAGCCTTGAGGAAGCAGTCTTTATACCTCAAGTTCGACCCG
CTACTGAAGGACAGTCCTCGTCGACCAGTGACCGCAGCCACTGGGACAAACAGCACACACGATGCAGACTGGCCTTCCTC
AGGAAATCTGCCAGAAGCCACGCTCGTGGAGTTTGATTTCTTGGGAGTGCTGGATGTTCCCGTGCCGGGCCCACCCCCGT
GTGTCCTCGTGCCTGGGAGCGCCCCCCTGCCTACCACTGGGCCCATCGTGGACCTGCTGCAGTATAGCCAGAAGGACCTG
GACATGGCAGTCAAAGTGACACAGGAGGAAAACCTGGAGCTGAAACGCAAGTGTGAGGAGCTCCATGGGAAGAACTTGGA
ACTTGGGAAGATCATGGACAGGTTTGAGGCAGTCATGTATCAGGCAATGGAGGAGGCTCAGAAACAGAAGGAACTTGCCA
AAGCTGAAATCCAGAAAGTTCTAAAAGAAAAAGACCAACTTACTACAGACCTGAAACCCATGGAAAAGTCCTTCTCTGAC
CTCTTCAAACGGTTTGAGAAGCAAAAGGAGGTGATCGAAGGCTACAACAAGAACGAAGAATCGCTGAAGAGGTGCGCTGA
AGAGTTCTTAGTGAGGATTGACAAGGAGGGCCAGAGATACCAAGCACTGAAGGCCCACGCGGAAGAGAAGCTCAAGCTGG
CAAATAAGGAGATTGCCCAGGTCCGGAGCAAGGCCCAACCAGAGGCCTCGGCCTTCCAGGCGAGCCTGAGGAAGGAGCAG
ATGCGGGTCCACTCCCTGGAGAAGATGGTGGAGCAGAAGACTAAAGAAAATGACGAGCTGACCAGGATCTGTGATGACCT
CATCTCCAAGATGAAGAGC

Alignment

ORF - retro_mmur_402 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.02 %
• Parental protein coverage: 69.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PPGTSPEAACGVPLADLPGEALAPPESVGT-PG---LAGPQAQ-PL-PGAVENSSLSQQLRPASVEDTPV
          PP.TSPEAACGVPLADLPGEALAPPESVGT.PG...LAGPQAQ.P..PGAVE.SSLS.QLRPASVEDTPV
Retrocopy PPVTSPEAACGVPLADLPGEALAPPESVGT>PGPCRLAGPQAQPPV<PGAVEDSSLSPQLRPASVEDTPV

Parental  AQMAAETPSTEGEEGNWNSSGTSVPTSCPGSEAVPPTQQGPEPALEPKEESFRDPAEVLGTGAEVDYLEQ
          AQMAAETPSTEG.EGNWNSSGTSVPTSCPGSEAVPPTQQGPEPALEPKEESFRDPAEVLGTGA..DYLEQ
Retrocopy AQMAAETPSTEGKEGNWNSSGTSVPTSCPGSEAVPPTQQGPEPALEPKEESFRDPAEVLGTGADIDYLEQ

Parental  FGTSSFKESALRKQSLYLKFDPLLKDSPRRPVTAATGTNSTHDADWPSSGNPPEATLVEFDFLGVLDVPV
          FGTSSFKESALRKQSLYLKFDPLLKDSPRRPVTAATGTNSTHDADWPSSGN.PEATLVEFDFLGVLDVPV
Retrocopy FGTSSFKESALRKQSLYLKFDPLLKDSPRRPVTAATGTNSTHDADWPSSGNLPEATLVEFDFLGVLDVPV

Parental  PGPPPCVLMPGSAPLPTTGPIVDLLQYSQKDLDMAVKVTQEENLELKRKCEELHGKNLELGEILDWYEAF
          PGPPPCVL.PGSAPLPTTGPIVDLLQYSQKDLDMAVKVTQEENLELKRKCEELHGKNLELG.I.D..EA.
Retrocopy PGPPPCVLVPGSAPLPTTGPIVDLLQYSQKDLDMAVKVTQEENLELKRKCEELHGKNLELGKIMDRFEAV

Parental  NYQAMEEAQKQKELAKAEIQKVLKEKDQLTTDLKSMEKSFSDLFKRFEKQKEVIEGYHKNEESLKRCAEE
          .YQAMEEAQKQKELAKAEIQKVLKEKDQLTTDLK.MEKSFSDLFKRFEKQKEVIEGY.KNEESLKRCAEE
Retrocopy MYQAMEEAQKQKELAKAEIQKVLKEKDQLTTDLKPMEKSFSDLFKRFEKQKEVIEGYNKNEESLKRCAEE

Parental  FLVRIDKEGQRYQALKAHAEEKLKLANEEIAQVRSKAQAEALAFQASLRKEQMRVHSLEKMVEQKTKEND
          FLVRIDKEGQRYQALKAHAEEKLKLAN.EIAQVRSKAQ.EA.AFQASLRKEQMRVHSLEKMVEQKTKEND
Retrocopy FLVRIDKEGQRYQALKAHAEEKLKLANKEIAQVRSKAQPEASAFQASLRKEQMRVHSLEKMVEQKTKEND

Parental  ELTRICDDLISKMKS
          ELTRICDDLISKMKS
Retrocopy ELTRICDDLISKMKS

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_402 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_402 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.

---

Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000005224	1 retrocopy	retro_lafr_821,
Microcebus murinus	ENSMICG00000008141	1 retrocopy	retro_mmur_402 ,
Mustela putorius furo	ENSMPUG00000011062	1 retrocopy	retro_mputfur_117,