RetrogeneDB ID: retro_fcat_1882

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: JH408733.1:1173263..1173771(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GZMA
• Ensembl ID: ENSFCAG00000008180
• Aliases: None
• Description: granzyme A (granzyme 1, cytotoxic T-lymphocyte-associated serine esterase 3) [Source:HGNC Symbol;Acc:4708]

Sequence

>retro_fcat_1882
ATGTATATTCATTCACATTGTGAATATGTATGTATATTTGACCAGGACACACATGAGGGTGATCTTAAACTTTTACAGCT
GACCAAAAAAGGCAAAAATTAATAAAAATGTGAGCACCCTCCATCTTCCTGAAAAAGGGGATGATGTGAAACCAGGAACC
TTGTGCCAAGTTGCAGGCTGGGGGAAAATTCATAATAACTCACCTCAGTCAGATACTTTGAGAGAAGTCAATATCACCGT
CATAAACAGTAGAATCTGCAATGATCAAAAGCACTATGATTATCATCACGTGATTGGGCTGAATATGATTTATGCCGGCA
GCCTCAAGGGTGGAAAAGACTAGTGCAATGGAGATTCTAGAAGCCCTTTGATATGTGAGGGTACTTTTAGAGTTATTACT
GCCTTTGGCCTTCTAGGGAAATGAGGAACCCTTTGAGGACCTGGCATCTATACTCTTCTCTCACAGAAGTATCTCAACTG
GATAAATAAGACTGTGAAGGGGCAGTTT

Alignment

ORF - retro_fcat_1882 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.71 %
• Parental protein coverage: 64.62 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MFVKKQYPYPC-FDQDTHEGDLKLLQLTKK-AKINKNVSTLRLPKKGDDVKPGTMCQVAGWGKIHNNSPQ
          M.......Y.C.FDQDTHEGDLKLLQLTKK.AKINKNVSTL.LP.KGDDVKPGT.CQVAGWGKIHNNSPQ
Retrocopy MYIHSHCEYVCIFDQDTHEGDLKLLQLTKK>AKINKNVSTLHLPEKGDDVKPGTLCQVAGWGKIHNNSPQ

Parental  SDTLREVNITVINRRICNDQKHYDYHPVIGLNMICAGSLKGGKDSCNGDSGSPLICEGTYRGITAFGLPG
          SDTLREVNITVIN.RICNDQKHYDYH.VIGLNMI.AGSLKGGKD.CNGDS.SPLICEGT.R.ITAFGL.G
Retrocopy SDTLREVNITVINSRICNDQKHYDYHHVIGLNMIYAGSLKGGKD*CNGDSRSPLICEGTFRVITAFGLLG

Parental  KCGDPRGPGIYTLLSQKYLNWINKTMKGQF
          K.G...GPGIYTLLSQKYLNWINKT.KGQF
Retrocopy K*GTL*GPGIYTLLSQKYLNWINKTVKGQF

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	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.30 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1882 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1882 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	ENSFCAG00000008180	1 retrocopy	retro_fcat_1882 ,