RetrogeneDB ID: retro_mluc_1991

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429979:2193249..2194047(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: THUMPD3
• Ensembl ID: ENSMLUG00000008538
• Aliases: None
• Description: None

Sequence

>retro_mluc_1991
GCAGGAGAGAAACATTGCTTTTCCTCAAATGAGGCTGCAAGAGATTTTGGGGGTGCTGTTCAAGATTATTTTAAGTGGAA
GGCTGACAGGACCAACTTTGATGTGGAGGTGCTTTTGAATATCCATGATAATGAAGTCATTGTGGGCATCGCATTGACAG
AAGAGAGTCTCCACCGAAGAAATATCACACATTTTGGACCTACAACTCTAAGATCTACTCTTGCTTATGGGATGCTCTGG
CTCTGTGCTCCTCAACCTTCTGATATAATAGTTGATCCGATGTGTAGAACAGGGGCAATACCAATAGAGGGGGCTACTGA
ATGGTCTAACTGCTTTCATATTGCTGGTGATAATAATCCATTGGCTGTGAACAGAGCAGCAAATAACATCTCATCTTTAC
TGACAAAGAGCCAAATTAAAGAAGGCAAATTGTCCGGGGGCTTGCCCATAGATGCTATTCAGTGGGATATCTGCAATCTG
CCATTAAGAACTGGCTCTGTGGACATTATTGTAACAGACATGCCATTTGGGAAAAGGATGGGCTCCAAGACAAGAAACTG
GAACTTTTACCCAGCTTGCCTGTGGGAGATGAGCCATATCTGTAAACCAGGGACAGGCCAAGCTGCACTACTTACTCAGG
ACAAGAAATGCTTTACAAAGGCATTATCTGGAATGGAACATGTATGGTGGAAAGTGCACACTGTCTGGGTGAACATAGGC
GGTCTTCGTGCTGCAGTTTACCTTCTGAACCGCACACCTCAAGCTTTTGTTCATCCTTCAGGACAGGATAAAAAGGAA

Alignment

ORF - retro_mluc_1991 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.11 %
• Parental protein coverage: 51.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AGEKHCFSSNEAARDFGGAVQDYFKWKADMTNFDVEVLLNIHDNEVIVGIALTEESLHRRNITHFGPTTL
          AGEKHCFSSNEAARDFGGAVQDYFKWKAD.TNFDVEVLLNIHDNEVIVGIALTEESLHRRNITHFGPTTL
Retrocopy AGEKHCFSSNEAARDFGGAVQDYFKWKADRTNFDVEVLLNIHDNEVIVGIALTEESLHRRNITHFGPTTL

Parental  RSTLAYGMLRLCAPQPSDIIVDPMCGTGAIPIEGATEWFNCFHIAGDNNPLAVNRAANNISSLLTKSQIK
          RSTLAYGML.LCAPQPSDIIVDPMC.TGAIPIEGATEW.NCFHIAGDNNPLAVNRAANNISSLLTKSQIK
Retrocopy RSTLAYGMLWLCAPQPSDIIVDPMCRTGAIPIEGATEWSNCFHIAGDNNPLAVNRAANNISSLLTKSQIK

Parental  EGKLSWGLPIDAIQWDICNLPLRTGSVDIIVTDMPFGKRMGSKKRNWNLYPACLWEMSRICKPGTGRAAL
          EGKLS.GLPIDAIQWDICNLPLRTGSVDIIVTDMPFGKRMGSK.RNWN.YPACLWEMS.ICKPGTG.AAL
Retrocopy EGKLSGGLPIDAIQWDICNLPLRTGSVDIIVTDMPFGKRMGSKTRNWNFYPACLWEMSHICKPGTGQAAL

Parental  LTQDKKCFTKALSGMEHVWRKVHTVWVNIGGLHAAVYLLNRTPQTFVHPSGQDKEE
          LTQDKKCFTKALSGMEHVW.KVHTVWVNIGGL.AAVYLLNRTPQ.FVHPSGQDK.E
Retrocopy LTQDKKCFTKALSGMEHVWWKVHTVWVNIGGLRAAVYLLNRTPQAFVHPSGQDKKE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_1991 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 5 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000008538	1 retrocopy	retro_mluc_1991 ,
Macaca mulatta	ENSMMUG00000017307	1 retrocopy	retro_mmul_1600,
Otolemur garnettii	ENSOGAG00000017111	1 retrocopy	retro_ogar_3452,
Sus scrofa	ENSSSCG00000030273	1 retrocopy	retro_sscr_873,
Tupaia belangeri	ENSTBEG00000003450	7 retrocopies	retro_tbel_2328, retro_tbel_2589, retro_tbel_3717, retro_tbel_4362, retro_tbel_4489, retro_tbel_4567, retro_tbel_969,