RetrogeneDB ID: retro_fcat_170

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A1:117522154..117523810(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RIOK2
• Ensembl ID: ENSFCAG00000024077
• Aliases: None
• Description: RIO kinase 2 [Source:HGNC Symbol;Acc:18999]

Sequence

>retro_fcat_170
ATGGGGCGAGTGAATGTGGCCAAGTTACGTTACATGAGCCGGGATGACTTCAGGGTTCTGACCACGGTTGAAATGGGCAT
GAAGAACCATGAAATAGTTCCCTGCAGTTTGGTTGCTTCTATAGCCAGCCTTAAACATGGTGGCTGTAATAAAGTTTTAA
GAGAATTAGTGAAACATAAACTCATAGCTTGGGAGCGTACCAAAACTGTCCAGGGCTATCGGTTGACAAATGCAGGATAT
GATTACCTAGCTTTGAAAACACTTTCTTCTAGACAGGTAGTTGAATCTGTTGGAAACCAGATAGGTGTTGGCAAAGAATC
TGATATTTATGTTGTTGCAAATGAAGAAGGGCAGCAATTTGCATTAAAGCTTCATAGGCTGGGAAGAACCTCCTTTCGAA
ATCTGAAAAACAAGCGTGATTATCATAAACACAGGCATAACATGTCTTGGCTTTATTTATCTCGTCTCTCTGCCATGAAA
GAATTTGCTTACATGAAGGCATTGTATGAGAGGAAATTTCCAGTCCCAAAACCGATTGATTATAATCGCCATGCAGTGGT
AATGGAACTCGTAAGTGGCTATCCTCTATGTCAGATACACCATGTTGAAGACCCTGCATCTGTATATGATGAAGCTATGG
ACCTAATTGTCAAACTTGCAAATCATGGACTGATTCATGGAGATTTCAATGAATTCAATCTCATTTTGGATAAAGATGAC
CACATCACCATGATTGATTTTCCACAGATGGTTTCAACTTCTCATCACAATGCTGAATGGTATTTTGACAGAGATGTTAA
ATGCATTAGAGATTTCTTCATGAAACGTTTCAGCTATGAAAGTGAGCTTTACCCAACTTTTAGTGATATCAGGAGGGAGG
ACTCTCTTGATGTAGAGGTTTCTGCCAGCGGCTACACAAAGGAAATGCAGACAGATGATGAATTGCTTCATCCATTAGGT
CCAGATGATGAAAATACTGAAACAGAAGACGGATCTGAATTCTCACCTTCTGATGAAGAGTTGTCAGAAAAAGCAAAGTT
TCATAAATCAAAAAATCAAAGTGATCAGAAGTCTGCAGATGAATCCGCTGACTACTGTTGCATATCATCTGGACACCTTG
AACAAATAAAGGGAGAGGATTCGTCAGAGGAGAGTGCTGATGCACAAAATTTTGAATTACCTGAATTCAGTCAAGCTTTA
AAAGAAATAAAAGCTCAAGTTATTGACAACAATTCTGTAACTGAATGTTCTGAGGAGACAGACAAAATTGAAAATGACAC
TAGGCAAAATGGTAAACCAGGTCAAGGAGGAATCCCCATGAGCTCTGAAGACTATGAAGATGCATGCCCTCATCTGATTG
CCTTGTCGTCAGTAAACAAAGAATTCAGGTCTTTAAGAGATGAAGAAAGTATGGAAGATACTAAACAGTACAGAACAAGA
ACTCTGAGTGTTACTTCTGTGGGCAGTGTTTTAAGCTGTTCAACAATTCCTCCGGAATTGGTGAAACAGAAGGTGAAACG
TCAGTTGACAAAACAGCAAAAATCAGCTTCCAGACGTCGACTACAGAAAGGAGAAGCAAATATATTTACAAAACAACGGA
GAGAAAACATGCAAAATATTAAGTCAAGCTTGGAAGCAGCTAACTTTTGGGGAGAG

Alignment

ORF - retro_fcat_170 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.55 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGLVNVAKLRYMSRDDFRVLTAVEMGMKNHEIVPCSLVASIASLKHGGCNKVLRELVKHKLIAWERTKTV
          MG.VNVAKLRYMSRDDFRVLT.VEMGMKNHEIVPCSLVASIASLKHGGCNKVLRELVKHKLIAWERTKTV
Retrocopy MGRVNVAKLRYMSRDDFRVLTTVEMGMKNHEIVPCSLVASIASLKHGGCNKVLRELVKHKLIAWERTKTV

Parental  QGYRLTNAGYDYLALKTLSSRQVVESVGNQIGVGKESDIYVVANEEGQQFALKLHRLGRTSFRNLKNKRD
          QGYRLTNAGYDYLALKTLSSRQVVESVGNQIGVGKESDIYVVANEEGQQFALKLHRLGRTSFRNLKNKRD
Retrocopy QGYRLTNAGYDYLALKTLSSRQVVESVGNQIGVGKESDIYVVANEEGQQFALKLHRLGRTSFRNLKNKRD

Parental  YHKHRHNMSWLYLSRLSAMKEFAYMKALYERKFPVPKPIDYNRHAVVMELVSGYPLCQIHHVEDPASVYD
          YHKHRHNMSWLYLSRLSAMKEFAYMKALYERKFPVPKPIDYNRHAVVMELVSGYPLCQIHHVEDPASVYD
Retrocopy YHKHRHNMSWLYLSRLSAMKEFAYMKALYERKFPVPKPIDYNRHAVVMELVSGYPLCQIHHVEDPASVYD

Parental  EAMDLIVKLANHGLIHGDFNEFNLILDKDDHITMIDFPQMVSTSHHNAEWYFDRDVKCIRDFFMKRFSYE
          EAMDLIVKLANHGLIHGDFNEFNLILDKDDHITMIDFPQMVSTSHHNAEWYFDRDVKCIRDFFMKRFSYE
Retrocopy EAMDLIVKLANHGLIHGDFNEFNLILDKDDHITMIDFPQMVSTSHHNAEWYFDRDVKCIRDFFMKRFSYE

Parental  SELYPTFSDIRREDSLDVEVSASGYTKEMQTDDELLHPLGPDDENTETEDGSEFSPSDEELSEKAKFYKS
          SELYPTFSDIRREDSLDVEVSASGYTKEMQTDDELLHPLGPDDENTETEDGSEFSPSDEELSEKAKF.KS
Retrocopy SELYPTFSDIRREDSLDVEVSASGYTKEMQTDDELLHPLGPDDENTETEDGSEFSPSDEELSEKAKFHKS

Parental  KNQSDQKSADESADYCCISSGHLEQIKGEDSSEESADAQNFELPEFSQALEEIKGQFIDNNSVTECSEET
          KNQSDQKSADESADYCCISSGHLEQIKGEDSSEESADAQNFELPEFSQAL.EIK.Q.IDNNSVTECSEET
Retrocopy KNQSDQKSADESADYCCISSGHLEQIKGEDSSEESADAQNFELPEFSQALKEIKAQVIDNNSVTECSEET

Parental  DKIENDTRQNGKPGQGGIPMSSEDYEDACPHLIALSSVNKEFRSFRDEESMEDTKQYRTRTLSVTSVGSV
          DKIENDTRQNGKPGQGGIPMSSEDYEDACPHLIALSSVNKEFRS.RDEESMEDTKQYRTRTLSVTSVGSV
Retrocopy DKIENDTRQNGKPGQGGIPMSSEDYEDACPHLIALSSVNKEFRSLRDEESMEDTKQYRTRTLSVTSVGSV

Parental  LSCSTIPPELVKQKVKRQLTKQQKSAARRRLQKGEANIFTKQRRENMQNIKSSLEAANFWGE
          LSCSTIPPELVKQKVKRQLTKQQKSA.RRRLQKGEANIFTKQRRENMQNIKSSLEAANFWGE
Retrocopy LSCSTIPPELVKQKVKRQLTKQQKSASRRRLQKGEANIFTKQRRENMQNIKSSLEAANFWGE

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	0.11 RPM	6.66 RPM
SRP017611_kidney	0.00 RPM	4.74 RPM
SRP017611_liver	0.10 RPM	2.83 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_170 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_170 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003803	1 retrocopy	retro_chof_1894,
Felis catus	ENSFCAG00000024077	1 retrocopy	retro_fcat_170 ,