RetrogeneDB ID: retro_fcat_427

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A3:61450254..61450477(+)
• Located in intron of: ENSFCAG00000026430

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDKL2
• Ensembl ID: ENSFCAG00000025744
• Aliases: None
• Description: cyclin-dependent kinase-like 2 (CDC2-related kinase) [Source:HGNC Symbol;Acc:1782]

Sequence

>retro_fcat_427
CCTCAACTAAAGTATAATCATCTCCCTCAGTTAAGAGCCTTGGAAGGTGTGGTTCAGAATTCCAGCCTAATAAGGAAAAA
GAACAAAAATCTTTCAGACTCTTCAAATTCCTTCTTTGGCCTCTACTGACTTGTGTGCCCCCAGTATAGCATTACAGCCA
ATATCAAGATCTCCACCATCAGACGATTCGGAGGCTGATCTGCTTTGAATGGAACACCAGCAC

Alignment

ORF - retro_fcat_427 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.67 %
• Parental protein coverage: 96.1 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PELNYNHLPELRALEGIARNSRLIRKENKNLSES-RIPSLATIDLHAPSIGLHQVSGSPLSDDSEADLPR
          P.L.YNHLP.LRALEG...NS.LIRK.NKNLS.S..IPSLA..DL.APSI.L...S.SP.SDDSEADL..
Retrocopy PQLKYNHLPQLRALEGVVQNSSLIRKKNKNLSDS>QIPSLASTDLCAPSIALQPISRSPPSDDSEADLL*

Parental  MEHQH
          MEHQH
Retrocopy MEHQH

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	0.23 RPM	68.06 RPM
SRP017611_kidney	0.21 RPM	43.28 RPM
SRP017611_liver	0.20 RPM	0.00 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_427 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_427 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000025744	1 retrocopy	retro_fcat_427 ,