RetrogeneDB ID: retro_mputfur_1178

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897036.1:365801..366249(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMPUG00000010313
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: LAMTOR1
• Ensembl ID: ENSMPUG00000010289
• Aliases: None
• Description: late endosomal/lysosomal adaptor, MAPK and MTOR activator 1 [Source:HGNC Symbol;Acc:26068]

Sequence

>retro_mputfur_1178
GAGGACTCAAACAAGGACTTAGAGGAACGGAAGCTGCTGCTGGACCCTGGCAGCCCCCCACCAAAGCTCTCAATGTAGCT
GAGAGTAACTACCATAGCCTGCCTCCCACTCCCACAGATGAGCAAGCCCTACTCTCCTCCAGCCTTGCTAAGACAGCCAG
CAACATCAATGGCATGTCTGCTGTGGACTTTCAGGGCACGGAACAGCATGAGCACACGGAGCCAGCGAAGCAATACAGCA
CACACTTGGCTGTGCTGAGCAGCAGTCTGACTCACTGGAAGAAGCTGCTGCCCCACCATCTCTCACCAGCCAGTCCCACC
AAATGCCGGCCAGCAAACCCTTCCCCCGTCCGACTTACAGCAGGTCTACAGGAGAGCTGCTGATGCCGCAGTACACTTTC
TCAGATCGGACAGGATGAGAAGAGGAGCTGGTTGTACAGTTTGGGATC

Alignment

ORF - retro_mputfur_1178 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.72 %
• Parental protein coverage: 93.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  EDSDQDREERKLLLDPSSPP-TKALNGAEPNYHSLPPTRTDEQALLSSILAKTASNIIDVSAADSQGMEQ
          EDS..D.EERKLLLDP.SPP.TKALN.AE.NYHSLPPT.TDEQALLSS.LAKTASNI...SA.D.QG.EQ
Retrocopy EDSNKDLEERKLLLDPGSPP<TKALNVAESNYHSLPPTPTDEQALLSSSLAKTASNINGMSAVDFQGTEQ

Parental  HEYMDRARQYSTRLAVLSSSLTHWKKLPP-LPSLTSQPHQVLASEP-VPFSDLQQVSRIAAYA-YSALSQ
          HE....A.QYST.LAVLSSSLTHWKKL.P..PSLTSQ.HQ..AS.P..P.SDLQQV.R.AA.A..S.LSQ
Retrocopy HEHTEPAKQYSTHLAVLSSSLTHWKKLLP<PPSLTSQSHQMPASKP<LPPSDLQQVYRRAADA<RSTLSQ

Parental  IRVDAK-EELVVQFGI
          I..D.K.EELVVQFGI
Retrocopy IGQDEK<EELVVQFGI

Legend:

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

Expression

RNA-Seq

Mustela putorius furo was not studied using RNA-Seq expression data.

ChIP-Seq

Mustela putorius furo was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mputfur_1178 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1178 was not experimentally validated.

Homology

Retrocopy orthology:

Mustela putorius furo 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010854	2 retrocopies	retro_amel_1176, retro_amel_436,
Canis familiaris	ENSCAFG00000005788	1 retrocopy	retro_cfam_1962,
Echinops telfairi	ENSETEG00000010979	1 retrocopy	retro_etel_1005,
Felis catus	ENSFCAG00000005320	2 retrocopies	retro_fcat_142, retro_fcat_496,
Macropus eugenii	ENSMEUG00000003560	1 retrocopy	retro_meug_17,
Myotis lucifugus	ENSMLUG00000014117	1 retrocopy	retro_mluc_2372,
Mustela putorius furo	ENSMPUG00000010289	3 retrocopies	retro_mputfur_1178 , retro_mputfur_270, retro_mputfur_455,
Tarsius syrichta	ENSTSYG00000014730	2 retrocopies	retro_tsyr_1324, retro_tsyr_33,