RetrogeneDB ID: retro_mputfur_1085

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897011.1:4337505..4337987(+)
• Located in intron of: ENSMPUG00000000374

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRM
• Ensembl ID: ENSMPUG00000016435
• Aliases: None
• Description: spermidine synthase [Source:HGNC Symbol;Acc:11296]

Sequence

>retro_mputfur_1085
CTCCTTGTCTTCTGCAGTGAGCACTGTGGCAACGTGCTAGTGTTGCACGGCGTCACCCAGTGCATGGAGGGGGCTGATTC
TCCCGGGATCTGATAGCCAACTTGCCCCTCTGTAGCCGCCCCGTCCCCTGCCAGGTGCTGCTCATCGGGGCTGGAGATGG
GGGTGACCTGCAGGAGGGGGTGAAGCATTCCTCCGTGGAGTCAGCCTGTGGTCCAGTGGGAGACTGACAAGGATGCTGCT
CAGGTCTCTAGGAAGTTCCTGCCAGGCATAGCTGTGGGGGGCTGCGGCCCCAAGCTGACCCTACATGTGGGCGATGGTTT
TGAGTTCATGAAACAGAACAAGGATGCCTTTGATGTCATCATCACTGACTTCTGCAGACCCCCTGGTCTCTGCCAAGACT
CTCTTCAAGGAGTTCTATCACCAGCTCGTGAAGGTGGCCCTCAAGGATGGTGGTGCGTGTCCCCTGCCAGGGCGAGTGGC
AG

Alignment

ORF - retro_mputfur_1085 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.39 %
• Parental protein coverage: 52.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  ILVFRSKSYGNVLVLDGVIQCTERDE-FSYQEMIANLPLCSHPNPRKV-LIIGGGDGGVLREVLKHSSVE
          .LVF.S...GNVLVL.GV.QC.E....FS....IANLPLCS.P.P..V.LI..G..G.....V...S...
Retrocopy LLVFCSEHCGNVLVLHGVTQCMEGAD<FS-RDLIANLPLCSRPVPCQVLLIGAGDGGDLQEGVKHSSVES

Parental  S-VVQCEIDEDVIQVSKKFLPGMAVGYSSSKLTLHVGDGFEFMKQNQDAFDVIITD-SSDPMGPAESLFK
          ..VVQ.E.D.D..QVS.KFLPG.AVG....KLTLHVGDGFEFMKQN.DAFDVIITD.S.DP...A..LFK
Retrocopy A>VVQWETDKDAAQVSRKFLPGIAVGGCGPKLTLHVGDGFEFMKQNKDAFDVIITD>SADPLVSAKTLFK

Parental  ESYYQLMKTALKDNGV-LCCQGECQ
          E.Y.QL.K.ALKD.G....CQGE.Q
Retrocopy EFYHQLVKVALKDGGA>VPCQGEWQ

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_1085 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1085 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
Gorilla gorilla	ENSGGOG00000014385	1 retrocopy	retro_ggor_1756,
Macropus eugenii	ENSMEUG00000007002	2 retrocopies	retro_meug_1330, retro_meug_887,
Myotis lucifugus	ENSMLUG00000017585	1 retrocopy	retro_mluc_2458,
Macaca mulatta	ENSMMUG00000019321	2 retrocopies	retro_mmul_1500, retro_mmul_2259,
Mustela putorius furo	ENSMPUG00000016435	1 retrocopy	retro_mputfur_1085 ,
Sus scrofa	ENSSSCG00000027689	1 retrocopy	retro_sscr_1208,