RetrogeneDB ID: retro_mluc_2458

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430445:6881..7195(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000013827
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SRM
• Ensembl ID: ENSMLUG00000017585
• Aliases: None
• Description: spermidine synthase [Source:HGNC Symbol;Acc:11296]

Sequence

>retro_mluc_2458
GTCACTCAAGTCCCTAAGAAGATCCTGCCCGGCATGGCCATTGGCTACTCCAGCGCAAAGCTGACCCTCCACGTGGGCGA
AGGTTTTGAGTTCATGAAACAGAACCAGACGCCTCCAATGTTATCATCACCGAGTCCTCGGATCCCAGGGGCCCTGCAGA
GAGCCTCTTCAAGGAGCCGATTACCAGCTCATGAAGATGGCGCTCAGGAGGACGGGATCCGCTGGGCCCGGGTGGGTGCC
GGTGGCTGCGCCTGGGCCTCATCAAGGACATGCGGCACGTCTGCAGGCCGCTCTTCCCCGGGCCCAGGTCGGCT

Alignment

ORF - retro_mluc_2458 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.91 %
• Parental protein coverage: 60.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  VIQVSKKFLPSMAIGYSSSKLTLHVGDGFEFMKQNQ-DAFDVIITDSSDPMGPAESLFKE-SYYQLMKTA
          V.QV.KK.LP.MAIGYSS.KLTLHVG.GFEFMKQNQ.DA..VIIT.SSDP.GPAESLFKE...YQLMK.A
Retrocopy VTQVPKKILPGMAIGYSSAKLTLHVGEGFEFMKQNQ<DASNVIITESSDPRGPAESLFKE<ADYQLMKMA

Parental  LK-EDGILCCQ-GECQWLHLDLIKDMQHFCRSLFPVVRYA
          L..EDGI.....G.C.WL.L.LIKDM.H.CR.LFP..R.A
Retrocopy LR<EDGIRWAR<GGCRWLRLGLIKDMRHVCRPLFPGPRSA

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_2458 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000014385	1 retrocopy	retro_ggor_1756,
Loxodonta africana	ENSLAFG00000028297	2 retrocopies	retro_lafr_1175, retro_lafr_894,
Macropus eugenii	ENSMEUG00000007002	2 retrocopies	retro_meug_1330, retro_meug_887,
Myotis lucifugus	ENSMLUG00000017585	1 retrocopy	retro_mluc_2458 ,
Macaca mulatta	ENSMMUG00000019321	2 retrocopies	retro_mmul_1500, retro_mmul_2259,
Mustela putorius furo	ENSMPUG00000016435	1 retrocopy	retro_mputfur_1085,
Ochotona princeps	ENSOPRG00000012079	1 retrocopy	retro_opri_1119,
Sus scrofa	ENSSSCG00000027689	1 retrocopy	retro_sscr_1208,