RetrogeneDB ID: retro_mputfur_1487

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897164.1:762486..763162(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMPUG00000000071
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PSMC3
• Ensembl ID: ENSMPUG00000003992
• Aliases: None
• Description: proteasome (prosome, macropain) 26S subunit, ATPase, 3 [Source:HGNC Symbol;Acc:9549]

Sequence

>retro_mputfur_1487
TTGGGGATCCAGCCTCCAAAAGGGGTGTTGATGTATGGCCCCCCAGGTACCGGGAAGACCCTGCTGGCCCCGGGCCTGTG
CTGCACAGACCAAGGCTACATTCCTGAAGTTGGCTGGCCCCCAGCTGGTGCAGATGTTCATTGGGGATGGTGCCAAGCTG
GTCTGGGATGCCTTTGCCCTGGCCAAGGAGAAAGCTCCGTCCATTATCTTCATCGATGAGCTGGATGCCATCGGCACTAA
GCGCTTTGACAGTGAGAAGGCTGGAGACCAGGAGGTGCAGAGGAAGATGTTGGAACTTCTGAACCAGCTGGATGGGTTCC
AACCCAACACTCAAGTAAAGGTGATTGCAGCCACCAACAGGGTGGATATCCTGGACCCCTCACTGCTCCGCTCAGGCCGT
CTGGACCGGAAGATTGAATTCCTGATGCCCAATGAGGAGGCCTGGGCCAGAATCATGCAGATCCACTCCCACAAGATGAA
CGTCAGTCCCGATGTGAACTATGAGGAACTGGCCCGCTGTATGGATGACTTCAATGGTGCCCAGTGCAAGGCCGTGTGCA
TGGAGGTGGGCATGATCGCACTGCGCAGGGGCGCCACGGAACTCACGCATGAGGACTACATGAAGGGCATCCTGGAGGTG
CAGGCCAAGAAGAAAGCCAATCTGCAGTACTATGCC

Alignment

ORF - retro_mputfur_1487 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.81 %
• Parental protein coverage: 50.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LGIQPPKGVLMYGPPGTGKTLLA-RACAAQTKATFLKLAGPQLVQMFIGDGAKLVRDAFALAKEKAPSII
          LGIQPPKGVLMYGPPGTGKTLLA.RACAAQTKATFLKLAGPQLVQMFIGDGAKLV.DAFALAKEKAPSII
Retrocopy LGIQPPKGVLMYGPPGTGKTLLA>RACAAQTKATFLKLAGPQLVQMFIGDGAKLVWDAFALAKEKAPSII

Parental  FIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFQPNTQAQVIAATNRVDILDPALLRSGRLDRKIE
          FIDELDAIGTKRFDSEKAGD.EVQR.MLELLNQLDGFQPNTQ..VIAATNRVDILDP.LLRSGRLDRKIE
Retrocopy FIDELDAIGTKRFDSEKAGDQEVQRKMLELLNQLDGFQPNTQVKVIAATNRVDILDPSLLRSGRLDRKIE

Parental  FPMPNEEARARIMQIHSRKMNVSPDVNYEELARCTDDFNGAQCKAVCVEAGMIALRRGATELTHEDYMEG
          F.MPNEEA.ARIMQIHS.KMNVSPDVNYEELARC.DDFNGAQCKAVC.E.GMIALRRGATELTHEDYM.G
Retrocopy FLMPNEEAWARIMQIHSHKMNVSPDVNYEELARCMDDFNGAQCKAVCMEVGMIALRRGATELTHEDYMKG

Parental  ILEVQAKKKANLQYYA
          ILEVQAKKKANLQYYA
Retrocopy ILEVQAKKKANLQYYA

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_1487 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1487 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008701	1 retrocopy	retro_cfam_52,
Monodelphis domestica	ENSMODG00000019911	2 retrocopies	retro_mdom_1035, retro_mdom_1540,
Mustela putorius furo	ENSMPUG00000003992	1 retrocopy	retro_mputfur_1487 ,