RetrogeneDB ID: retro_mputfur_1295

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897071.1:3040310..3040856(+)
• Located in intron of: ENSMPUG00000002743

Retrocopy information

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

Parental gene information

• Parental gene symbol: PSMA5
• Ensembl ID: ENSMPUG00000003189
• Aliases: None
• Description: proteasome (prosome, macropain) subunit, alpha type, 5 [Source:HGNC Symbol;Acc:9534]

Sequence

>retro_mputfur_1295
ATGTTCCTCGCCCGGTCTGAGTACGACAGGGGCGTGAATACTTTTTCTCCTGAAGGAAGATTATTTCAAGTGGAATATGC
CATTGAAGCTATCAAGCTTGGTTCTACAGCCATTGGGATCCAGACATCAGAGGGTGTATGCCTAGCTGTGGAGAAGAGAA
TTACCTCCCCACTCATGGAGCCAAGCAGCATTGAGAAAATTGTAGAGATTGATGCTCACATAGGTTGTGCCATGAGTGGG
CTAATTGCTGATGCTAAAACTTTAATTGATAAAGCCAGAGTGGAGACACAGAACTATTGGTTCACCTACAATGAGACAAT
GACTGTGGAGAGTGTGACTCAGGCTGTGTCTAATCTAGCTCTTCAGTTTGGAGAAGAAGATGCAGATCCAGGTGTCATGT
CTTGTCCCTTTGGAGTAGCACTGTTATTTGGAGGAGTTGATGAGAAAGGACCCCTGCTGTTTCACATGGACCCATCTGGG
ACCTTTGTACAGTGTGATGCTTGAGCAATTGGCTCTGCTTCAGAGGGTGCCCAGAGCTCCTTGAAG

Alignment

ORF - retro_mputfur_1295 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.15 %
• Parental protein coverage: 75.52 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEI
          MFL.RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEI
Retrocopy MFLARSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEI

Parental  DAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVA
          DAHIGCAMSGLIADAKTLIDKARVETQN.WFTYNETMTVESVTQAVSNLALQFGEEDADPG.MS.PFGVA
Retrocopy DAHIGCAMSGLIADAKTLIDKARVETQNYWFTYNETMTVESVTQAVSNLALQFGEEDADPGVMSCPFGVA

Parental  LLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQ
          LLFGGVDEKGP.LFHMDPSGTFVQCDA.AIGSASEGAQSSL.
Retrocopy LLFGGVDEKGPLLFHMDPSGTFVQCDA*AIGSASEGAQSSLK

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_1295 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1295 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000008497	2 retrocopies	retro_mluc_1002, retro_mluc_926,
Mustela putorius furo	ENSMPUG00000003189	1 retrocopy	retro_mputfur_1295 ,
Mus musculus	ENSMUSG00000068749	1 retrocopy	retro_mmus_52,
Otolemur garnettii	ENSOGAG00000013560	1 retrocopy	retro_ogar_3137,
Pteropus vampyrus	ENSPVAG00000008908	1 retrocopy	retro_pvam_222,
Sus scrofa	ENSSSCG00000006830	2 retrocopies	retro_sscr_1156, retro_sscr_1194,