RetrogeneDB ID: retro_mputfur_89

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896911.1:16070452..16071844(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMPUG00000019787
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMPUG00000014835
• Aliases: None
• Description: SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2 [Source:UniProtKB/TrEMBL;Acc:G9KQ46]

Sequence

>retro_mputfur_89
CGGCGGCCTGGTATGTCACCAGGGAGCCGGATGCCCATGGCTGGCTTGCAGGTGGGACCTCCCGCTGGATCTCCCTTCGG
CACAGCTGCTGCACTTCGATCTGGGATGCCGCCCACCATGATGGACCCATTCCGCAAACGCCTGCTTGTGCCCCAGGCCC
AGCCCCCAATGCCTGCCCAGCGCCAGGGGTTGAAAAGGAGGAAGATGGCAGATAAGGTTCTACCTCAGCGAATTCGGGAG
CTTGTCCCAGAGTCTGAGGCGTACATGGATCTCTTGACTTTTGAGCGGAAGCTGGACCAGACCATTGCCCGAAAGCGTAT
GGAGATCCAAGAGGCCATCAAAAAGCCTCTGACGCAAAAACGAAAGCTGCGGATCTATATGATCTATATTTCCAATACGT
TCAGTCCCAGCAAGGCAGAAGGTGACACTGCGGGGACCACAGGGCCCCCCGGGGGAACCCCCGCAGGGGACAAAGTGGCT
TCCTGGGAACTCCGAGTGGAGGGAAAACTGCTGGATGATCCCAGCAAACAGAAGAGGAAGTTTTCTTCGTTCTTCAAGAG
CCTCGTCATTGAGCTGGACAAGGAGCTGTATGGACCTGACAACCACCTGGTGGAGTGGCACCGGATGCCCACCACCCAGG
AAACTGATGGCTTCCAGGTGAAACGGCCTGGAGACCTCAACGTCAAGTGCACCCTCCTGCTCATGCTGGATCATCAGCCT
CCCCAGTACAAGTTGGACGCCCGACTGGCAAGGCTGCTGGGGGTGCACACACAGACCAGGGCGGCCATCATGCAGGCCCT
ATGGCTTTATATCAAACACAACCAGCTGCAGGATGGGCACGAGCGCGAGTACATCAACTGCAACCGGTACTTCCGCCAGA
TCTTCAGTTGTGGCCGCCTTCGTTTCTCTGAGATTCCCATGAAGCTGGCTGGGTTGCTGCAGCATCCAGACCCCATTGTC
ATCAACCATGTCATTAGTGTAGACCTGAACGATCAAAAGAAGACCGCATGTTATGACATTGACGTGGAGGTGGACGACCC
ACTGAAGGCCCAGATGAGCAATTTTCTGGCCTCTACCACCAATCAGCAGGAGATCGCCTCCCTTGATGTCAAGATCCATG
AGACCATTGAGTCCATCAACCAGCTGAAGACCCAGAGGGATTTCATGCTCAGCTTTAGCACCGACCCTCAGGACTTCATC
CAGGAATGGCTCCGCTCCCAGCGCCGAGACCTCAAGATCATCACAGATGTGATCGGGAATCCGGAAGAGGAGAGACGAGC
TGCTTTCTACCATCAGCCGTGGGCCCAGGAAGCAGTGGGGAGGCGCATTTTTGCCAAGGTGCAGCAGCGAAGGCAGGAAC
TGGAACAGGTGCTGGGAATCCGCTTGACCTAA

Alignment

ORF - retro_mputfur_89 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.62 %
• Parental protein coverage: 86.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QRPGMSPGSRMPMAGLQVGPPAGSPFGTAAALRPGMPPTMMDPFRKRLLVPQAQPPMPAQRRGLKRRKMA
          .RPGMSPGSRMPMAGLQVGPPAGSPFGTAAALR.GMPPTMMDPFRKRLLVPQAQPPMPAQR.GLKRRKMA
Retrocopy RRPGMSPGSRMPMAGLQVGPPAGSPFGTAAALRSGMPPTMMDPFRKRLLVPQAQPPMPAQRQGLKRRKMA

Parental  DKVLPQRIRELVPESQAYMDLLAFERKLDQTIARKRMEIQEAIKKPLTQKRKLR---IYISNTFSPSKAE
          DKVLPQRIRELVPES.AYMDLL.FERKLDQTIARKRMEIQEAIKKPLTQKRKLR...IYISNTFSPSKAE
Retrocopy DKVLPQRIRELVPESEAYMDLLTFERKLDQTIARKRMEIQEAIKKPLTQKRKLRIYMIYISNTFSPSKAE

Parental  GDTAGTTGPPGGTPAGDKVASWELRVEGKLLDDPSKQKRKFSSFFKSLVIELDKELYGPDNHLVEWHRMP
          GDTAGTTGPPGGTPAGDKVASWELRVEGKLLDDPSKQKRKFSSFFKSLVIELDKELYGPDNHLVEWHRMP
Retrocopy GDTAGTTGPPGGTPAGDKVASWELRVEGKLLDDPSKQKRKFSSFFKSLVIELDKELYGPDNHLVEWHRMP

Parental  TTQETDGFQVKRPGDLNVKCTLLLMLDHQPPQYKLDPRLARLLGVHTQTRAAIMQALWLYIKHNQLQDGH
          TTQETDGFQVKRPGDLNVKCTLLLMLDHQPPQYKLD.RLARLLGVHTQTRAAIMQALWLYIKHNQLQDGH
Retrocopy TTQETDGFQVKRPGDLNVKCTLLLMLDHQPPQYKLDARLARLLGVHTQTRAAIMQALWLYIKHNQLQDGH

Parental  EREYINCNRYFRQIFSCGRLRFSEIPMKLAGLLQHPDPIVINHVISVDPNDQKKTACYDIDVEVDDPLKA
          EREYINCNRYFRQIFSCGRLRFSEIPMKLAGLLQHPDPIVINHVISVD.NDQKKTACYDIDVEVDDPLKA
Retrocopy EREYINCNRYFRQIFSCGRLRFSEIPMKLAGLLQHPDPIVINHVISVDLNDQKKTACYDIDVEVDDPLKA

Parental  QMSNFLASTTNQQEIASLDVKIHETIESINQLKTQRDFMLSFSTDPQDFIQEWLRSQRRDLKIITDVIGN
          QMSNFLASTTNQQEIASLDVKIHETIESINQLKTQRDFMLSFSTDPQDFIQEWLRSQRRDLKIITDVIGN
Retrocopy QMSNFLASTTNQQEIASLDVKIHETIESINQLKTQRDFMLSFSTDPQDFIQEWLRSQRRDLKIITDVIGN

Parental  PEEERRAAFYHQPWAQEAVGRHIFAKVQQRRQELEQVLGIRLT
          PEEERRAAFYHQPWAQEAVGR.IFAKVQQRRQELEQVLGIRLT
Retrocopy PEEERRAAFYHQPWAQEAVGRRIFAKVQQRRQELEQVLGIRLT

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_89 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_89 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012708	1 retrocopy	retro_cfam_256,
Callithrix jacchus	ENSCJAG00000019528	1 retrocopy	retro_cjac_2323,
Mustela putorius furo	ENSMPUG00000014835	1 retrocopy	retro_mputfur_89 ,
Sarcophilus harrisii	ENSSHAG00000013118	1 retrocopy	retro_shar_464,
Tursiops truncatus	ENSTTRG00000006988	1 retrocopy	retro_ttru_1394,