RetrogeneDB ID: retro_mputfur_1185

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897037.1:1100691..1101226(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TRNAU1AP
• Ensembl ID: ENSMPUG00000015511
• Aliases: None
• Description: tRNA selenocysteine 1 associated protein 1 [Source:HGNC Symbol;Acc:30813]

Sequence

>retro_mputfur_1185
TTTAAACTGAGCTATGCCACTTATAGGAAACAACCAGATAACAGCCTTGAGTATTCCTTCTTTGCGGGGGACCTGACCCC
AGATGTGGATGATGATGTGCTATATGAATTCTTCATCAAAGTTTACCCCTCCTATTAGGGAGGCAAGGTGATTTTGCCTC
CAAACAGCTGTGTCTAAAGACTATGGTTTTGTGAAAACCACAGATGAACTGGAACAGAAGTGAGCCTTGACTGACTGCCA
AGGAACAGTCGTCCTGGAGCCTAAACCAGTGCAGCTGAGCATGGCAATCCTCAAAGCAAGCCAAATGATGTCAGTGGAGT
ATAGTCAGATTTACAGTTACAGCTGCAATCACTATTACCAGTAATGCAAGAACTGTTATAGTTACCAGAATACAAGCAGC
TACAGCTATGGCTATACCTAGTATGGTTATACCCAGAGCACTGTGTAGGGATATCAAGAAGTTAGGGATTACACATTGGA
AGACCCCATGCTACATCTGGATGTGATTGAGGCCAACAAGGAGTTCATGGAGGAA

Alignment

ORF - retro_mputfur_1185 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.85 %
• Parental protein coverage: 63.41 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FKLNYATYGKQPDNSPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD-QTGVSKGYGFVKFTDE
          FKL.YATY.KQPDNS.EYS.F.GDLTPDVDD..LYEFF.KVYPS..GGKV.L..QT.VSK.YGFVK.TDE
Retrocopy FKLSYATYRKQPDNSLEYSFFAGDLTPDVDDDVLYEFFIKVYPSY*GGKVILP>QTAVSKDYGFVKTTDE

Parental  LEQKRALTECQGAVGLGSKPVRLSVAIPKASRVKPVEYSQMYSYSYNQYYQQYQNYYAQWGYDQNTGSYS
          LEQK.ALT.CQG.V.L..KPV.LS.AI.KAS....VEYSQ.YSYS.N.YYQ...N.Y......QNT.SYS
Retrocopy LEQK*ALTDCQGTVVLEPKPVQLSMAILKASQMMSVEYSQIYSYSCNHYYQ*CKNCYSY----QNTSSYS

Parental  YSYPQYGYTQSTMQTYEEVGDDALEDPMPQLDVVEANKEFMEQ
          Y.Y..YGYTQST...Y.EV.D..LEDPM..LDV.EANKEFME.
Retrocopy YGYT*YGYTQSTV*GYQEVRDYTLEDPMLHLDVIEANKEFMEE

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_1185 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1185 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011367	1 retrocopy	retro_amel_1782,
Callithrix jacchus	ENSCJAG00000009717	1 retrocopy	retro_cjac_3928,
Equus caballus	ENSECAG00000012980	1 retrocopy	retro_ecab_452,
Mustela putorius furo	ENSMPUG00000015511	2 retrocopies	retro_mputfur_1185 , retro_mputfur_856,