RetrogeneDB ID: retro_fcat_1776

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F1:20702104..20702511(-)
• Located in intron of: ENSFCAG00000028522

Retrocopy information

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

Parental gene information

• Parental gene symbol: ITPA
• Ensembl ID: ENSFCAG00000013414
• Aliases: None
• Description: inosine triphosphatase (nucleoside triphosphate pyrophosphatase) [Source:HGNC Symbol;Acc:6176]

Sequence

>retro_fcat_1776
CTGGAAGAGGTCATTCAGATACTAGGAGATAAGTTTTCATGTACTTTGGTGGCACAGAAAATTGCCTTGCCAAAGTCTCA
GGGTGGACCTGATGAGATTTCCATATAGAAGCGTCAGGAGACGGCTCTACAGGTACAGACGCCTGCACTGGTGGAGGACA
CAAATCTGTGCTTCAACGCTTTCAGGGGTCTCCCTGGCCCCTATATACAGTGGTTTCCAGAAAAGTTAAAGCCTAAAAGT
CTGAACCAGCTCCTGGCTGGGTTCCAGGACAGACTTTGCCCATGTGCTCTGCACATTTCTGCTCAGCATCAGGGACCCCA
GCAGGCCAGTGTGCCCGTCCAGGGGCCAGAGCTTGGGGCCAGATGGTGGTGCTCTGAGGCTGCTAGGACTTTGGCTAGGA
CCCCTGC

Alignment

ORF - retro_fcat_1776 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.07 %
• Parental protein coverage: 63.38 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LEEVIQILGDKFPCTLVAQKIDLPEYQGEPDEISIQKCQEAARQVQGPVLVEDTCLCFNALGGLPGPYIK
          LEEVIQILGDKF.CTLVAQKI.LP..QG.PDEISI.K.QE.A.QVQ.P.LVEDT.LCFNA..GLPGPYI.
Retrocopy LEEVIQILGDKFSCTLVAQKIALPKSQGGPDEISI*KRQETALQVQTPALVEDTNLCFNAFRGLPGPYIQ

Parental  WFLEKLKPEGLHQLLAGFEDK-SAYALCTFALSTGDPSEPVRLFRG-RTSGRIVVPRGCRDFGWDPC
          WF.EKLKP..L.QLLAGF.D...A..LCTF.LS..DPS.PV...RG.R..G..VV..GC.DFG.DPC
Retrocopy WFPEKLKPKSLNQLLAGFQDR>FAHVLCTFLLSIRDPSRPVCPSRG>RAWGQMVVL*GC*DFG*DPC

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	9.30 RPM
SRP017611_kidney	0.00 RPM	19.89 RPM
SRP017611_liver	0.00 RPM	11.42 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1776 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1776 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011021	1 retrocopy	retro_amel_476,
Canis familiaris	ENSCAFG00000031613	1 retrocopy	retro_cfam_1841,
Felis catus	ENSFCAG00000013414	1 retrocopy	retro_fcat_1776 ,
Microcebus murinus	ENSMICG00000013833	1 retrocopy	retro_mmur_1207,
Mustela putorius furo	ENSMPUG00000008868	1 retrocopy	retro_mputfur_971,
Mus musculus	ENSMUSG00000074797	3 retrocopies	retro_mmus_2063, retro_mmus_3369, retro_mmus_3604,