RetrogeneDB ID: retro_mputfur_1375

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897102.1:2874623..2876612(+)
• Located in intron of: ENSMPUG00000016653

Retrocopy information

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

Parental gene information

• Parental gene symbol: PAPOLA
• Ensembl ID: ENSMPUG00000003054
• Aliases: None
• Description: poly(A) polymerase alpha [Source:HGNC Symbol;Acc:14981]

Sequence

>retro_mputfur_1375
ATGCCGTTTCCGGTGACAACCTCCGGATCACAACAGACACCGCCGCCGCCCAAGCGCTATGGCATCTCCTCCCCCATCAG
CTTAGCAGCCCCCAAGGAGACTGACTGCGTACTTACCCAGAAGTTAATTGAAACCCTGAAGCCCTTTGGGGTTTTTGAAG
AGGAAGAGGAACTGCAGCGCAGGATTTTAATTTTGGAAAAATTAAATAATCTGGTAAAGGAATGGATAAGAGAAATCAGT
GAAAGCAAGAGCCTTCCACAAGCTGTAATTGAAAATGTTGGAGGGAAAATCTTTACGTTTGGCTCTTACAGATTAGGAGT
ACACACGAAAGGCGCTGACATTGATGCGCTGTGCGTTGCGCCGAGACATGTTGATCGAAGTGACTTTTTCACCTCATTCT
ATGACAAATTGAAACTACACGAAGAAGTAAAAGATTTAAGGGCTGTTGAGGAGGCCTTTGTACCAGTTATTAAACTGTGT
TTTGATGGTATAGAGATTGATATTTTGTTTGCGAGGTTGGCACTGCAGACTATTCCAGAAGATTTGGACCTAAGAGATGA
CAGTCTGCTTAAAAACTTAGATATTAGATGCATAAGAAGCCTTAACGGTTGCCGGGTGACAGATGAAATTTTACATCTAG
TTCCAAACATTGACAACTTCAGGTTAACTCTCAGAGCCATCAAACTGTGGGCCAAATGCCACAATATCTATTCCAATATA
TTAGGATTCCTGGGAGGTGTTTCTTGGGCCATGCTAGTAGCGAGAACTTGCCAGCTCTACCCAAATGCAATAGCATCAAC
TCTTGTTCGTAAGTTTTTCTTGGTATTTTCAGAATGGGAATGGCCAAATCCAGTGCTACTGAAAGAGCCTGAAGAGCGGA
ATCTTAATTTGCCTGTATGGGACCCAAGAGTAAATCCCAGTGATAGGTACCATCTTATGCCCATAATCACACCAGCGTAC
CCACAGCAGAACTCCACATACAATGTGTCTGTTTCAACAAGGATGGTCATGATTGAGGAGTTTAAACAAGGGCTTGCTAT
CACACATGAAATTTTGCTGAGTAAGGCAGAGTGGTCTAAGCTTTTTGAAGCTCGAAGCTTCTTTCAAAAGTATAAGCATT
ATATTGTACTCCTAGCAAGTGCACCAACAGAAAAACAACATCTAGAATGGGTGGGCTTGGTGGAGTCAAAAATCCGAATC
CTGGTTGGAAGCTTGGAGAAGAATGAATTTATTACTCTGGCGCATGTGAATCCTCAGTCGTTTCCGGCACCTAAAGAAAA
TCCTGACAAGGAACAATTTCGTACAATGTGGGTGATTGGGTTAGTGTTAAAAAGGCCAGAAAACTCCGAGGTTCTCAGTA
TTGATCTCACCTATGATATCCAGTCTTTCACAGATACCGTTTATAGGCAAGCAATAAATAGCAAGATGTTTGAGATGGAT
ATGAAAATTGCTGCAATGCATTTAAGAAGAAAGGAACTTCATCAACTGCTGCCTAATCATGTGCTTCAGAAACGGAAAAC
CCATTCATCGGAAGGTGTCACTTTAACAGCTTTGAGTGACAGCAGCCTTGGCTTGTCTACAGACAGTGAAGACAGCATGT
CTGTGCCTTTACCTGCTGGCACTATGAAGACCGGCCCAGTGACTGGCAGCTCTCAGGGCAGAAACAGTCCTGCTCCTGCT
GTAATGGCAGCATCTGTGACCGCCGTACAAGTTACTGAAGTTTCCTTGCAACAAGGGACTCCAAGCGAAAGCTTAGGAGG
TGCGTCAAGCGAAAGCATTCCTCAGACTGCCTCACAGCCAGCCCTCCTTCCACTACCAAAGGCCACAGTTGCCAGAGTTG
TTTCTTCAACACGTCTGGTAAACCATCCACCCAGGCCTTCAGGGAGCACTGCGACAAACATAGCTAATCCTATCGTGGGC
GTCTAGTCGGCATTCTCACCTCATAAAGGACCAAGGAAACTAAAAGAAGAGGAACAGACTCATAAAGAG

Alignment

ORF - retro_mputfur_1375 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.11 %
• Parental protein coverage: 90.26 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPFPVTTQGSQQTQPPQKHYGITSPISLAAPKETDCLLTQKLIETLKPFGVFEEEEELQRRILILGKLNN
          MPFPVTT.GSQQT.PP.K.YGI.SPISLAAPKETDC.LTQKLIETLKPFGVFEEEEELQRRILIL.KLNN
Retrocopy MPFPVTTSGSQQTPPPPKRYGISSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEELQRRILILEKLNN

Parental  LVKEWIREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLQ
          LVKEWIREISESK.LPQ.VIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKL.
Retrocopy LVKEWIREISESKSLPQAVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSDFFTSFYDKLKLH

Parental  EEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEI
          EEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEI
Retrocopy EEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEI

Parental  LHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLYPNAIASTLVHKFFLVFSKWE
          LHLVPNIDNFRLTLRAIKLWAK.HNIYSNILGFLGGVSWAMLVARTCQLYPNAIASTLV.KFFLVFS.WE
Retrocopy LHLVPNIDNFRLTLRAIKLWAKCHNIYSNILGFLGGVSWAMLVARTCQLYPNAIASTLVRKFFLVFSEWE

Parental  WPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDE
          WPNPVLLK.PEE.NLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVM.EEFKQGLAIT.E
Retrocopy WPNPVLLKEPEERNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMIEEFKQGLAITHE

Parental  ILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQS
          ILLSKAEWSKLFEA..FFQKYKHYIVLLASAPTEKQ.LEWVGLVESKIRILVGSLEKNEFITLAHVNPQS
Retrocopy ILLSKAEWSKLFEARSFFQKYKHYIVLLASAPTEKQHLEWVGLVESKIRILVGSLEKNEFITLAHVNPQS

Parental  FPAPKENPDKEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKR
          FPAPKENPDKE.FRTMWVIGLV.K..ENSE.LS.DLTYDIQSFTDTVYRQAINSKMFE.DMKIAAMH..R
Retrocopy FPAPKENPDKEQFRTMWVIGLVLKRPENSEVLSIDLTYDIQSFTDTVYRQAINSKMFEMDMKIAAMHLRR

Parental  KQLHQLLPSHVLQKKKKHSTEGVRLTPLNDSSLDLSMDSDNSMSVPSPTSAMKTSPLNSSGSSQGRNSPA
          K.LHQLLP.HVLQK.K.HS.EGV.LT.L.DSSL.LS.DS..SMSVP.P...MKT.P....GSSQGRNSPA
Retrocopy KELHQLLPNHVLQKRKTHSSEGVTLTALSDSSLGLSTDSEDSMSVPLPAGTMKTGPV--TGSSQGRNSPA

Parental  PAVTAASVTNIQATEVSVPQVNSSESSGGTSSESIPQTATQPAISPPPKPTVSRVVSSTRLVNPPPRPSG
          PAV.AASVT..Q.TEVS..Q...SES.GG.SSESIPQTA.QPA..P.PK.TV.RVVSSTRLVN.PPRPSG
Retrocopy PAVMAASVTAVQVTEVSLQQGTPSESLGGASSESIPQTASQPALLPLPKATVARVVSSTRLVNHPPRPSG

Parental  NAATKIPNPIVGVKRTSSPHKEESPKKTKTEEDETSE
          ..AT.I.NPIVGV....SPHK...P.K.K.EE....E
Retrocopy STATNIANPIVGV*SAFSPHK--GPRKLKEEEQTHKE

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_1375 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1375 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 17 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014142	1 retrocopy	retro_amel_517,
Bos taurus	ENSBTAG00000004054	1 retrocopy	retro_btau_1078,
Canis familiaris	ENSCAFG00000017783	1 retrocopy	retro_cfam_1783,
Callithrix jacchus	ENSCJAG00000006512	2 retrocopies	retro_cjac_1763, retro_cjac_543,
Homo sapiens	ENSG00000090060	1 retrocopy	retro_hsap_30,
Gorilla gorilla	ENSGGOG00000006287	1 retrocopy	retro_ggor_202,
Myotis lucifugus	ENSMLUG00000010922	1 retrocopy	retro_mluc_1396,
Macaca mulatta	ENSMMUG00000018610	1 retrocopy	retro_mmul_1675,
Monodelphis domestica	ENSMODG00000012887	2 retrocopies	retro_mdom_1714, retro_mdom_1916,
Mustela putorius furo	ENSMPUG00000003054	1 retrocopy	retro_mputfur_1375 ,
Mus musculus	ENSMUSG00000021111	1 retrocopy	retro_mmus_37,
Nomascus leucogenys	ENSNLEG00000000625	1 retrocopy	retro_nleu_2771,
Otolemur garnettii	ENSOGAG00000004611	1 retrocopy	retro_ogar_987,
Pongo abelii	ENSPPYG00000006128	1 retrocopy	retro_pabe_3113,
Pan troglodytes	ENSPTRG00000006704	1 retrocopy	retro_ptro_2595,
Pteropus vampyrus	ENSPVAG00000013925	1 retrocopy	retro_pvam_360,
Vicugna pacos	ENSVPAG00000006464	1 retrocopy	retro_vpac_378,