RetrogeneDB ID: retro_mputfur_210

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896898.1:49677645..49678563(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AP5M1
• Ensembl ID: ENSMPUG00000005943
• Aliases: None
• Description: adaptor-related protein complex 5, mu 1 subunit [Source:HGNC Symbol;Acc:20192]

Sequence

>retro_mputfur_210
TTGGCTCAGTGGACAGTGTGGCTCATAGCCATGAACCAGGATCTCCACATTGTGGCACCATCATATTCTCCAGATGATAT
CCCACTCTTGGAAAATGAGCTAAGGTCTTCAATGGAGTAAATTATATGCCTATTCCCAAAGATGGTCCCTTTCTTAAAGC
ACTACTCTTTGAAGTTAGATTATTGGATGATGATAAGAACTTAATACAGAGTCATGATAACTGGTTCACACACAATAAAA
CATCTGTTTATGGTCTCCTAAGAGGTGGAGAACTCTGGAAAGTTGTTGCTTTTCTGAAGAATAACATGATATATGTTTAT
GTTCCACTGTTGAATAAGCTGTATCTCCTCATCCACCATTAATTCACGTTAGTGGAATTTCACAAGGCTCTTTTCTTTTA
GAGGTAACATTGATATATATATTTTTTTACTTGGGACAGAAAAAAGACACTGAGCTAAATACAAAATTGAACCAATTGCT
TGATTTACTTCTACAAAATTGTCCATTGGAATTTTCTTGGATGCCAACCTACAGAACTCACTGGGTAGTGCTAGTCTTGT
TTCTGTGATGCATCTATAAAAGCAGCCAGCCTGGAAAGTTAGAACCTACAAAGGAAAACCACAAGTTTCTATTTCTATCA
CTGAAAAGGTAAAATCCATACAATATGATAAATAGGATATAGCAGATACAAGGCAAGTCTTTGGAGCTATCATTTTCAAG
TGCGATTTAGAAAGAATCATGCCAAACGTTACAATCAGCTTGAGTCTCCCCACCAATGGATCTCCACTTCAGAATATTCT
AGTTCATCCTTGTGTGACTTCTCTTGACCTTGGCATTCTGACTTGTAGTAGCATTGATGCAATGGATGATTCTGCACTTA
GTGTACCTTACAAATTTCCATTCACTCTTCCTTTAGAG

Alignment

ORF - retro_mputfur_210 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.35 %
• Parental protein coverage: 62.45 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAQRAVWLI-SHEPGTPLCGTVRFSRRYPTVEKRARVFNGTSYVPIPEDGPFLKALLFELRLLDDNKDFV
          .AQ..VWLI.SHEPG.P.CGT..FSR.YPT..K.A.VFNG..Y.PIP.DGPFLKALLFE.RLLDD.K...
Retrocopy LAQWTVWLI<SHEPGSPHCGTIIFSR*YPTLGK*AKVFNGVNYMPIPKDGPFLKALLFEVRLLDDDKNLI

Parental  ESRDSCSHINKTSVYGLVIGGGELWPVVAFLKNNMIYACVPL-VEQTLSPHPPLISISGISQ-SFEL-LF
          .S.D.....NKTSVYGL...GGELW.VVAFLKNNMIY..VPL.VE...SPHPPLI..SGISQ.SF.L...
Retrocopy QSHDNWFTHNKTSVYGL-LRGGELWKVVAFLKNNMIYVYVPL<VE*AVSPHPPLIHVSGISQGSFLLEVT

Parental  GIQDFLFLGQKNDTELNTKLNQLPDLFLQACPF-GTLLDANLQNSLDSINFASVPHPQKQPAWRVGTYKG
          .I..F..LGQK.DTELNTKLNQL.DL.LQ.CP..G..LDANLQNSL.S....SV.H..KQPAW.V.TYKG
Retrocopy LIYIFFYLGQKKDTELNTKLNQLLDLLLQNCPL<GIFLDANLQNSLGSASLVSVMHL*KQPAWKVRTYKG

Parental  KPQVSISITEKVKSMQYDKQDIADTWQVVGAVTCKCDLEGNMPNVTISLSLPTNGSPLQDILVHPCVTSL
          KPQVSISITEKVKS.QYDK.DIADT.QV.GA...KCDLE..MPNVTISLSLPTNGSPLQ.ILVHPCVTSL
Retrocopy KPQVSISITEKVKSIQYDK*DIADTRQVFGAIIFKCDLERIMPNVTISLSLPTNGSPLQNILVHPCVTSL

Parental  DSAILTSSSIDTMDDSAFSGPYKFPFTPPLE
          D..ILT.SSID.MDDSA.S.PYKFPFT.PLE
Retrocopy DLGILTCSSIDAMDDSALSVPYKFPFTLPLE

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_210 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_210 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000002388	1 retrocopy	retro_amel_1700,
Canis familiaris	ENSCAFG00000015249	1 retrocopy	retro_cfam_1676,
Mustela putorius furo	ENSMPUG00000005943	1 retrocopy	retro_mputfur_210 ,
Nomascus leucogenys	ENSNLEG00000013007	1 retrocopy	retro_nleu_590,
Ictidomys tridecemlineatus	ENSSTOG00000011073	1 retrocopy	retro_itri_993,
Tupaia belangeri	ENSTBEG00000010976	1 retrocopy	retro_tbel_167,