RetrogeneDB ID: retro_mputfur_860

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896960.1:8862298..8862909(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TYMS
• Ensembl ID: ENSMPUG00000005419
• Aliases: None
• Description: thymidylate synthetase [Source:HGNC Symbol;Acc:12441]

Sequence

>retro_mputfur_860
GATGCCAATGGGTCTCGAGACTTCTAGGACAGCTTGGGGTTCTCCAACAGAAAAGAAGGGGATTTAGGCCCAGTTTATGT
CTTTCAGTGGAAGCATTTTGGGGCAGAATACATAGATAAGGATTCAGATTATTCAGGTCAAGGAGTAGACCAACTGCAAA
AGGTCATTGACACAATCAAACCAACCCCAACGACAGAAGAATCATCCTGAGTGGCTGGAATCCAAAAGATATTCCTCTGA
CGGCCCTCCCTCCGTGCCATGCCCTCTGCCAGTTTTGCGTGGTGAATGGTGAACTGTCCTGCCAGCTGTACCAGAGGTCA
GGGGACATGGGCCTGGGCGTGCCCTTCAACATCGCCAGCTATGCCCTGCTCACCTACATGATTGCACACATCACAGGACT
AAAGCCAGGTGACTTCGTACATACTTTGGGAGATGCACATATTTACCTGAATCACATTGAGCTGCTGAAAATGCAGCTTC
AGCAAGAACCAAGGCCTTTCCCGAAGCTCAAAATCCTTCGAAAAGTTGAGACAATGGATGACTTCAAGGCTGAAGACTTT
CAGATTGAGGGGTACAGTCCTCAACTGACTATTGAAATGGAAATGGCTGTT

Alignment

ORF - retro_mputfur_860 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.2 %
• Parental protein coverage: 64.15 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DANGSRDFLDSLGFSNREEGDLGPVYGFQWRHFGAEYIDKDSDYSGQGVDQLQKVIDTIK-TNPDDRRII
          DANGSRDF.DSLGFSNR.EGDLGPVY.FQW.HFGAEYIDKDSDYSGQGVDQLQKVIDTIK.TNP.DRRII
Retrocopy DANGSRDF*DSLGFSNRKEGDLGPVYVFQWKHFGAEYIDKDSDYSGQGVDQLQKVIDTIK<TNPNDRRII

Parental  LCGWNPKDLPLMALPPCHALCQFYVVNGELSCQLYQRSGDMGLGVPFNIASYALLTYMIAHITGLKPGDF
          L.GWNPKD.PL.ALPPCHALCQF.VVNGELSCQLYQRSGDMGLGVPFNIASYALLTYMIAHITGLKPGDF
Retrocopy LSGWNPKDIPLTALPPCHALCQFCVVNGELSCQLYQRSGDMGLGVPFNIASYALLTYMIAHITGLKPGDF

Parental  VHTLGDAHIYLNHIEPLKMQLQREPRPFPKLKILRKVETIDDFKAEDFQIEGYSPHPTIKMEMAV
          VHTLGDAHIYLNHIE.LKMQLQ.EPRPFPKLKILRKVET.DDFKAEDFQIEGYSP..TI.MEMAV
Retrocopy VHTLGDAHIYLNHIELLKMQLQQEPRPFPKLKILRKVETMDDFKAEDFQIEGYSPQLTIEMEMAV

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_860 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_860 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 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000009230	2 retrocopies	retro_fcat_1107, retro_fcat_339,
Loxodonta africana	ENSLAFG00000014910	2 retrocopies	retro_lafr_1030, retro_lafr_635,
Macropus eugenii	ENSMEUG00000009507	1 retrocopy	retro_meug_175,
Monodelphis domestica	ENSMODG00000021479	2 retrocopies	retro_mdom_1084, retro_mdom_1186,
Mustela putorius furo	ENSMPUG00000005419	2 retrocopies	retro_mputfur_1155, retro_mputfur_860 ,
Mus musculus	ENSMUSG00000025747	1 retrocopy	retro_mmus_584,
Otolemur garnettii	ENSOGAG00000024349	2 retrocopies	retro_ogar_2956, retro_ogar_3211,
Sarcophilus harrisii	ENSSHAG00000003102	1 retrocopy	retro_shar_424,