RetrogeneDB ID: retro_mputfur_1010

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896993.1:3841557..3842756(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: COPS4
• Ensembl ID: ENSMPUG00000014708
• Aliases: None
• Description: COP9 signalosome subunit 4 [Source:HGNC Symbol;Acc:16702]

Sequence

>retro_mputfur_1010
GCAGCAGCCGTGCGGCAGGACTTAGCCCAGCTCCTGAACTCGAGCGGCTCTCACAAAGATCCGGTGGGCAAGTACTGTCA
GATCCCGGAAAAAGCCGTTCCGTTATCTGGGGCAGAACAACTAGAAGCTTTGAAAGCTTTTGTGGAAGCAATGGTAAGTG
AGAATGTCAGTCTCGTGATCTCTCGACAGTTGCTAACTGATTTCTGTACACATCTCCCTAACCTGCCTGACAGCACAGCC
AAAGAAATCTATCTTTTCACCTTGGAAAAGATCCAGCCGAGAGTCATTTCATTTGAGGAGCAGGTTGCGTCAATAAGACA
GCATCGTGCATCCATATATGAGAAAGAAGAAGCTTGGAGAAATGCAGCCCAAGTGTTGGTGGGAATTCCCTTGGAAACAG
GACAAAAGCAGTACAATGTAGATTATAAACTGGAGACTCACCTGAAGATTGCGAGGCTATAGCTGGAAGATGACGATCCC
GTCCAGGCAGAGGCTTACATAAATCGAGCATCATTGCTTCAGAATGAATCCACCAATGGGCAGTTACAGATACACTATAA
GGTATGCTATGCACCTGTTCTCAATCAGAGAAGAAAATTCATTGAAGCTGCACAAGGTACAATGAGCTCTCTTACAAGAC
AATAAGTCTTACAAGACTAGAGGCCTTGAAACATGCTTTGTACTGTACCATCTTGGCATCAGCAGGACAGCAGCGGATGC
TAGCCACTCTTTTTAAGGATGAAAGGTGCCAGCAACTTGCTGCTTATGGGATCCTAGAGAAAATGTACCTAGACAGGATC
ATCAGAGGAAATCAACTTCAAGAGTTTGCGGCCATGCTAATGTCTCACCAAAAAGCAACTACCACTGATGGTTCTAGCAT
CTTGGACAGAGCTGTTATTGAACATAATTTGTTGTCTGCAAACAAATTATATAATATCACCTTTGAAGAACTTGGAGCTC
TTTTAGAGATCCCTGCAGCTAAGGCAGAAAAAATAGCATCACAAATGATAACAGAAGGACGTATGAATGGATTTATTGAT
CAGATTGATGGAATAGTTCATTTTGAAACATGGGAAGCCCTGCCAATGTGGGACAAACAGATCCAGTCCCTTTGTTTCCA
AGTGAATAACCTGCTGGAGAAGATCAGTCAAACGGCGCCAGAGTGGACAGCACAGGCCATGGAGGGGCAGATGGCTCAG

Alignment

ORF - retro_mputfur_1010 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.87 %
• Parental protein coverage: 99.75 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AAAVRQDLAQLMTSSGSHKDLAGKYRQILEKAVQLSGAEQLEALKAFVEAMVNENVSLVISRQLLTDFCT
          AAAVRQDLAQL..SSGSHKD..GKY.QI.EKAV.LSGAEQLEALKAFVEAMV.ENVSLVISRQLLTDFCT
Retrocopy AAAVRQDLAQLLNSSGSHKDPVGKYCQIPEKAVPLSGAEQLEALKAFVEAMVSENVSLVISRQLLTDFCT

Parental  HLPNLPDSTAKEIYHFTLEKIQPRVISFEEQVASIRQHLASIYEKEEDWRNAAQVLVGIPLETGQKQYNV
          HLPNLPDSTAKEIY.FTLEKIQPRVISFEEQVASIRQH.ASIYEKEE.WRNAAQVLVGIPLETGQKQYNV
Retrocopy HLPNLPDSTAKEIYLFTLEKIQPRVISFEEQVASIRQHRASIYEKEEAWRNAAQVLVGIPLETGQKQYNV

Parental  DYKLETYLKIARLYLEDDDPVQAEAYINRASLLQNESTNEQLQIHYKVCYARVLDYRRKFIEAAQ-RYNE
          DYKLET.LKIARL.LEDDDPVQAEAYINRASLLQNESTN.QLQIHYKVCYA.VL..RRKFIEAAQ.RYNE
Retrocopy DYKLETHLKIARL*LEDDDPVQAEAYINRASLLQNESTNGQLQIHYKVCYAPVLNQRRKFIEAAQ<RYNE

Parental  LSYKTIVHESERLEALKHALHCTILASAGQQRSRMLATLFKDERCQQLAAYGILEKMYLDRIIRGNQLQE
          LSYKTI.....RLEALKHAL.CTILASAGQQ..RMLATLFKDERCQQLAAYGILEKMYLDRIIRGNQLQE
Retrocopy LSYKTI--SLTRLEALKHALYCTILASAGQQ--RMLATLFKDERCQQLAAYGILEKMYLDRIIRGNQLQE

Parental  FAAMLMPHQKATTADGSSILDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNG
          FAAMLM.HQKATT.DGSSILDRAVIEHNLLSA.KLY.NITFEELGALLEIPAAKAEKIASQMITEGRMNG
Retrocopy FAAMLMSHQKATTTDGSSILDRAVIEHNLLSANKLY-NITFEELGALLEIPAAKAEKIASQMITEGRMNG

Parental  FIDQIDGIVHFETREALPTWDKQIQSLCFQVNNLLEKISQTAPEWTAQAMEAQMAQ
          FIDQIDGIVHFET.EALP.WDKQIQSLCFQVNNLLEKISQTAPEWTAQAME.QMAQ
Retrocopy FIDQIDGIVHFETWEALPMWDKQIQSLCFQVNNLLEKISQTAPEWTAQAMEGQMAQ

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_1010 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1010 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000015209	2 retrocopies	retro_ecab_315, retro_ecab_600,
Monodelphis domestica	ENSMODG00000019311	1 retrocopy	retro_mdom_824,
Mustela putorius furo	ENSMPUG00000014708	1 retrocopy	retro_mputfur_1010 ,
Otolemur garnettii	ENSOGAG00000027198	1 retrocopy	retro_ogar_3514,
Tupaia belangeri	ENSTBEG00000017599	2 retrocopies	retro_tbel_2134, retro_tbel_53,