RetrogeneDB ID: retro_mputfur_407

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896907.1:15339954..15340264(-)
• Located in intron of: ENSMPUG00000013474

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM254
• Ensembl ID: ENSMPUG00000003613
• Aliases: None
• Description: transmembrane protein 254 [Source:HGNC Symbol;Acc:25804]

Sequence

>retro_mputfur_407
GTCACTGTCCTGGTACTGGGCTATTTTGTGTGGGTTGTTTTGTGGCCTCAGAGTATCCCTTGTCAGAGCCTTGGGCCTCT
TGGCTGCTTCACTCAGGATTTCGTGGATCATCATCACACTTTCTTATATGTGGCCACTGGCTTGCTTGGCTGATTCATGT
GGGAGAGTCCTTGTTAGCCATGGTTTTGTGTAAGTCTAAAGACATCATGTCTGGATGGCTCAGCTACTTTCGTTCCTACA
AACTTTCCTCTTTGGGATAACATCTCTCTCCATCTTGATTGCTTATGGACGCAAATCCAAAAAACACACT

Alignment

ORF - retro_mputfur_407 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.58 %
• Parental protein coverage: 83.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VITLSFGYYTWVVFWPQSIPYQSLGPLGLFTQYLVDHHHTFLH-NGYWLAWLIHVGESLYAMVLCKSKGI
          V..L..GY..WVV.WPQSIP.QSLGPLG.FTQ..VDHHHTFL...G.WLAWLIHVGESL.AMVLCKSK.I
Retrocopy VTVLVLGYFVWVVLWPQSIPCQSLGPLGCFTQDFVDHHHTFLY<CGHWLAWLIHVGESLLAMVLCKSKDI

Parental  TDG-RAQLLWFLQTFLFGIASLSILIAYRPKRQKQT
          ..G..AQLL.FLQTFLFGI.SLSILIAY..K..K.T
Retrocopy MSG<MAQLLSFLQTFLFGITSLSILIAYGRKSKKHT

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_407 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_407 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012986	4 retrocopies	retro_amel_1410, retro_amel_1554, retro_amel_1777, retro_amel_821,
Bos taurus	ENSBTAG00000001656	1 retrocopy	retro_btau_316,
Homo sapiens	ENSG00000133678	1 retrocopy	retro_hsap_1692,
Mustela putorius furo	ENSMPUG00000003613	2 retrocopies	retro_mputfur_400, retro_mputfur_407 ,
Mus musculus	ENSMUSG00000072676	1 retrocopy	retro_mmus_2102,
Nomascus leucogenys	ENSNLEG00000010657	1 retrocopy	retro_nleu_1337,
Oryctolagus cuniculus	ENSOCUG00000013679	1 retrocopy	retro_ocun_453,
Otolemur garnettii	ENSOGAG00000028898	1 retrocopy	retro_ogar_59,
Pongo abelii	ENSPPYG00000002293	1 retrocopy	retro_pabe_1393,