RetrogeneDB ID: retro_mputfur_1508

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897187.1:989040..989572(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: Chmp3
• Ensembl ID: ENSMPUG00000009273
• Aliases: None
• Description: charged multivesicular body protein 3 [Source:MGI Symbol;Acc:MGI:1913950]

Sequence

>retro_mputfur_1508
AAACAATCTGTGAAAGATGCTGCCAAGAAGGGCCAGAAGGATGTCTACATGGTTCCAGCTAATGAGATGATAGGTCAAGG
AAGGTCATGAGCACTCTTTATGCATCCAAAGCTCACATGAACTCTGTGCTCATGGGGACAAAGAACCAGCTGGTGGTCTG
AAAATGGCTGGTTCCTTCCCTGCAAAAGAACACAGAAGTGATGAAGGCCACTCAGAGTCTTGGAAAGACCCCATCAACCC
AGGGCACCATATAGGAATTGTCCAAAGAGATTTCAAAGACTGAGATCATGGAAGAGGTGGTAGAGGATACTTTTGAAAGC
ATAAATGTTCTGGAAGAAATGGAAGAAGGAGCAGAAGTGGAATTGATAAAGTTTTCTTTGAAATTACAGCAGGAGCCTTT
GGCAAAGCACCTCACAATGAGCCTCGTATACTTCTAGAGACCAAATCTCCAGGAGGAGTAGCTGCCTTAGAAGATAAGGA
GTAGGAAGAAGCTTTGGAGGCCATGCAATCCTAGCTGGCCATGCTCCACAGT

Alignment

ORF - retro_mputfur_1508 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.38 %
• Parental protein coverage: 80.27 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KRSVKDAAKKGQKDVCVVLAKEMI-RSRKAVSKLYASKAHMNSVLMGMKNQLAVLR-VAGSLQKSTEVMK
          K.SVKDAAKKGQKDV..V.A.EMI.RSRK..S.LYASKAHMNSVLMG.KNQL.V......SLQK.TEVMK
Retrocopy KQSVKDAAKKGQKDVYMVPANEMI<RSRKVMSTLYASKAHMNSVLMGTKNQLVV*KWLVPSLQKNTEVMK

Parental  AMQSLVKIPEIQATMRELSKEMMKAGIIEEMLEDTFESMDDQEEMEEAAEME-IDKILFEITAGALGKAP
          A.QSL.K.P..Q.T..ELSKE..K..I.EE..EDTFES....EEMEE.AE.E.IDK..FEITAGA.GKAP
Retrocopy ATQSLGKTPSTQGTI*ELSKEISKTEIMEEVVEDTFESINVLEEMEEGAEVE<IDKVFFEITAGAFGKAP

Parental  SKVTDALPEPEPPGAMAASEDEEEEEEEALEAMQSRLATLRS
          ......L.E...PG..AA.ED...E.EEALEAMQS.LA.L.S
Retrocopy HNEPRILLETKSPGGVAALED--KE*EEALEAMQS*LAMLHS

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_1508 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1508 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 7 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000002851	1 retrocopy	retro_dord_382,
Macropus eugenii	ENSMEUG00000009111	1 retrocopy	retro_meug_178,
Microcebus murinus	ENSMICG00000005492	3 retrocopies	retro_mmur_1110, retro_mmur_1396, retro_mmur_47,
Mustela putorius furo	ENSMPUG00000009273	1 retrocopy	retro_mputfur_1508 ,
Mus musculus	ENSMUSG00000053119	1 retrocopy	retro_mmus_1683,
Ochotona princeps	ENSOPRG00000002191	2 retrocopies	retro_opri_18, retro_opri_436,
Sorex araneus	ENSSARG00000008917	1 retrocopy	retro_sara_13,