RetrogeneDB ID: retro_mputfur_252

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896900.1:988265..988564(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HMGN1
• Ensembl ID: ENSMPUG00000008550
• Aliases: None
• Description: high mobility group nucleosome binding domain 1 [Source:HGNC Symbol;Acc:4984]

Sequence

>retro_mputfur_252
GCAAAGGCATGTGCCTGCCCTGCAGATACGATGCCTAAGGGAATGGCAAAGGAGGGCTCCAAGAGGATATTAGCGACATT
GCCAGCCAAATATACTTCTGCAAAAGTGTAAACGAAGCCAAAAAAGGTGGCAGAAAAGGATCAATCTTCAGACAAGTGCA
AACAAAGGGGGAAAGGGGAGCAAAGGGAAAACCAGCTAAAGTGGCTACCAAGAAACAAAGAAGACTTGCAGAAAATGGAG
AAACTGAAAACAAGGAGAGCCCAGTCTCTGACAAAGCAGAAGAGAAGGAAGCCAAGTCT

Alignment

ORF - retro_mputfur_252 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.43 %
• Parental protein coverage: 75.94 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AVSSASPAPPSSPRGRARRTLSAALAF--QKPAPAKVEAKPKKAAAKDKSSDKK-VQTKGKRGAKGKQAE
          A...A.PA....P.G.A.......LA....K...AKV..KPKK..A....S..K.VQTKG.RGAKGK.A.
Retrocopy AKACACPAD-TMPKGMAKEGSKRILATLPAKYTSAKV*TKPKKV-AEKDQSSDK<VQTKGERGAKGKPAK

Parental  VANQEAKDDLPAENGETKN-ESPASDEAGEKEAKS
          VA....K....AENGET.N.ESP.SD.A.EKEAKS
Retrocopy VATK--KQRRLAENGETENKESPVSDKAEEKEAKS

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_252 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_252 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 5 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000002336	7 retrocopies	retro_cpor_1129, retro_cpor_1389, retro_cpor_334, retro_cpor_349, retro_cpor_4, retro_cpor_884, retro_cpor_949,
Monodelphis domestica	ENSMODG00000020972	5 retrocopies	retro_mdom_1085, retro_mdom_109, retro_mdom_284, retro_mdom_755, retro_mdom_88,
Mustela putorius furo	ENSMPUG00000008550	3 retrocopies	retro_mputfur_252 , retro_mputfur_371, retro_mputfur_483,
Rattus norvegicus	ENSRNOG00000048226	8 retrocopies	retro_rnor_1020, retro_rnor_1239, retro_rnor_1290, retro_rnor_2643, retro_rnor_2667, retro_rnor_642, retro_rnor_764, retro_rnor_966,
Rattus norvegicus	ENSRNOG00000050978	5 retrocopies	retro_rnor_1057, retro_rnor_1318, retro_rnor_1389, retro_rnor_2433, retro_rnor_358,