RetrogeneDB ID: retro_mputfur_1437

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897135.1:1733067..1733725(-)
• Located in intron of: ENSMPUG00000006906

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC28A
• Ensembl ID: ENSMPUG00000014889
• Aliases: None
• Description: coiled-coil domain containing 28A [Source:HGNC Symbol;Acc:21098]

Sequence

>retro_mputfur_1437
GCTTCGGAGGCTTCGGGGTCTTTGCAGTTTGAGAAAGAGGACCCCGATCCTCTCCTTCCTCAGGTTTTAAGAAGCTGGCC
TTGGTGCAGTAAGGAGCTTAGAACAATGGAGGAACGGAAAGTGAAGAGGAGGAGTCCTAAGTCTTTTAGTGTCCACTCTA
CTCAGGTGGTTAATGCCCCAAAAAAATACCATTCCAGTTAGTAAAAGCACAGGGTTTTCAAATCCTGCATCACAGTCAAC
TTCACAGCGACCAAAGTTAAAAAGAGTGATGAAAGAAAAGACCAGACCTCAGGGTGGAGAAGGAAAATGTGCACAACCGA
CTCCTATTCAGCACTCCTTCCTCACCGACGTCTCAGACGTTCAGGAGATGGAGAGAGGGCTTCTCAGCCTTTTGAATGAT
TTCCACTCTGGAAAACTTCAAGCATTCGGAAATGAATGTTCCATTGAACAGATGGAACATGTTCGGGGAATGCAGGAGAA
ATTAGCTCGCTTGAATTTGGAGCTCTATGGGGAGTTAGAGGAACTTCCTGAGGATAAGAGAAAAACAGCCAGTGACTCCA
ATCTGGACAGGCTTCTGTCTGACTTAGAAGAACTGAATTCTTCCATACAAAAGCTACATTTGTCTGATGCACAAGATGTT
CCAAATACTTCCACCAGC

Alignment

ORF - retro_mputfur_1437 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.27 %
• Parental protein coverage: 79.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ASEASGSLQFEKEDPDPLLPQVLRSWPWCSKELRTMEERKVKRRSPKSFSAHSTQVVNA-KKNAIPVSKS
          ASEASGSLQFEKEDPDPLLPQVLRSWPWCSKELRTMEERKVKRRSPKSFS.HSTQVVNA..KN.IPVSKS
Retrocopy ASEASGSLQFEKEDPDPLLPQVLRSWPWCSKELRTMEERKVKRRSPKSFSVHSTQVVNA>QKNTIPVSKS

Parental  TGFSNPASQSTSQRPKLKRVMKEKTRPQGGEGKGAQPTPIQHSFLTDVSDVQEMERGLLSLLNDFHSGKL
          TGFSNPASQSTSQRPKLKRVMKEKTRPQGGEGK.AQPTPIQHSFLTDVSDVQEMERGLLSLLNDFHSGKL
Retrocopy TGFSNPASQSTSQRPKLKRVMKEKTRPQGGEGKCAQPTPIQHSFLTDVSDVQEMERGLLSLLNDFHSGKL

Parental  QAFGNECSIEQMEHVRGMQEKLARLNLELYGELEELPEDKRKTASDSNLDRLLSDLEELNSSIQKLHLAD
          QAFGNECSIEQMEHVRGMQEKLARLNLELYGELEELPEDKRKTASDSNLDRLLSDLEELNSSIQKLHL.D
Retrocopy QAFGNECSIEQMEHVRGMQEKLARLNLELYGELEELPEDKRKTASDSNLDRLLSDLEELNSSIQKLHLSD

Parental  AQDVPNTSTS
          AQDVPNTSTS
Retrocopy AQDVPNTSTS

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_1437 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1437 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007605	1 retrocopy	retro_chof_810,
Mustela putorius furo	ENSMPUG00000014889	1 retrocopy	retro_mputfur_1437 ,
Sorex araneus	ENSSARG00000002666	1 retrocopy	retro_sara_117,