RetrogeneDB ID: retro_fcat_1830

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F2:34208..34748(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DCK
• Ensembl ID: ENSFCAG00000022606
• Aliases: None
• Description: deoxycytidine kinase [Source:HGNC Symbol;Acc:2704]

Sequence

>retro_fcat_1830
GGTGGGAATGTTCTTCAGATGATATATGAGAAACCTGAATGACAGTCTTTTACCTTCCAATCATATGCCTGCCTCAGTCG
AATATGAGCCTAGCTTGCTTGTCTCAATAGCACGCTCAAAGATGCAGAAAAGCCTGTATCAATTTTTGAACAACCTCTAT
ATAGGTATAGGCATAGTTTTGCATCTAGTTTGTATCAGTATGACTACATGAATGAAACAGAGTAGGCAATTTATCAAGAC
TGGCATGACTGGATGAATCTAAAGTTTGGCCAAAGCTCTGAACTGGATGGAATCAGTTATCTTTGAGCCACTGCAGAGAA
ATGCTTGAATAGAATATGGGAAAGAAATGAAGACCAAGGCATTCTTGAATATATACAGAAGCTTCACTATAAGCATGAAA
GCTGAGTCCTGCATAGAACACTGAAAATCAACTTTGATTTTCTACAAGAAATCCCTATCTTAACACTGGATATTAACGAA
GACTTTCAAGGCAAATATGGTTGAAAAGGCCAAAGAATCTTTGAGTACTTTGTGATCTTG

Alignment

ORF - retro_fcat_1830 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.85 %
• Parental protein coverage: 68.03 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGNVLQMMYEKPERWSFTFQSYACLSRIRAQLACLNGKLKDAEKPVLFFERSIYSDRYVFASNLYESDCM
          GGNVLQM.YEKPE..SFTFQSYACLSRI.A.LACLN..LKDAEKPV..FE...Y..R..FAS.LY..D.M
Retrocopy GGNVLQMIYEKPE*QSFTFQSYACLSRI*A*LACLNSTLKDAEKPVSIFEQPLYRYRHSFASSLYQYDYM

Parental  NETEWTIYQDWHDWMNHQFGQSLELDGIIYLRATPEKCLNRMYLRGRNEEQGIPLEYLEKLHDKHESWLL
          NETE..IYQDWHDWMN..FGQS.ELDGI.YL.AT.EKCLNR.....RNE.QGI.LEY..KLH.KHES..L
Retrocopy NETE*AIYQDWHDWMNLKFGQSSELDGISYL*ATAEKCLNRIW--ERNEDQGI-LEYIQKLHYKHES*VL

Parental  HRTLKTDFDFLQEIPILTLDINEDFKDKHDSLVEKVKEFLSTL
          HRTLK..FDFLQEIPILTLDINEDF..K.........E....L
Retrocopy HRTLKINFDFLQEIPILTLDINEDFQGKYG*KGQRIFEYFVIL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	7.35 RPM
SRP017611_kidney	0.00 RPM	0.41 RPM
SRP017611_liver	0.00 RPM	3.03 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1830 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1830 was not experimentally validated.

Homology

Retrocopy orthology:

Felis catus 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000022606	1 retrocopy	retro_fcat_1830 ,
Myotis lucifugus	ENSMLUG00000005844	1 retrocopy	retro_mluc_2007,
Mus musculus	ENSMUSG00000029366	1 retrocopy	retro_mmus_2735,
Oryctolagus cuniculus	ENSOCUG00000001265	1 retrocopy	retro_ocun_1247,
Pan troglodytes	ENSPTRG00000016139	1 retrocopy	retro_ptro_427,
Pteropus vampyrus	ENSPVAG00000004341	1 retrocopy	retro_pvam_32,
Rattus norvegicus	ENSRNOG00000003296	1 retrocopy	retro_rnor_1026,
Xenopus tropicalis	ENSXETG00000018331	1 retrocopy	retro_xtro_9,