RetrogeneDB ID: retro_fcat_383

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A2:79318633..79319126(-)
• Located in intron of: ENSFCAG00000014403

Retrocopy information

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

Parental gene information

• Parental gene symbol: CTSZ
• Ensembl ID: ENSFCAG00000000845
• Aliases: None
• Description: cathepsin Z [Source:HGNC Symbol;Acc:2547]

Sequence

>retro_fcat_383
GCCGCCATGCTGGCAGCACAGCCTGTAAAGGACCCTTGCAAGGACGCTTGCAACCTGGGCTCCTGCGCAGGGGCGACGAC
CTGCAGGTGTGGGGGTACACCCACCGGCAAGGCATCCCTGACGAGGCCTGCAACAGCTACCAGGCCAAGGACTGGGAGTA
TGACAATGACCGGGAGCTTAACCAATGTGGAACCTGCACGGAACTCAAAGACGGCCATGCCGTCCAGAACTACACCCTCA
AGTAGGTTGGCGACTATGGCTCCCTCTCCAGAAGAGAGATGGTGGCAGAAATCTACACCAAAGGCCCATCGGCTGCAGTA
CAAGGGCGACAGAGAAGACGGATAACTACATAGGCGGCATCTATGTCGAGAACCCAGACAGGGCCTACGTAAACTGTGTC
ATTTTCTTGGCCGGCTGGGATGTCAACCATGACACTGAGTACTGGACGGTCCAGGGTTCATGGGGAGAACCATGCAGTGG
GCAAGACTGGATG

Alignment

ORF - retro_fcat_383 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.12 %
• Parental protein coverage: 52.13 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  STLLSVQHVID-CGDA---GSCEG-GNDLPVWGYAHEHGIPDETCNNYQAKDQECD---KFNQCGTCTEF
          ...L..Q.V.D.C.DA...GSC.G.G.DL.VWGY.H..GIPDE.CN.YQAKD.E.D.....NQCGTCTE.
Retrocopy AAMLAAQPVKDPCKDACNLGSCAG<GDDLQVWGYTHRQGIPDEACNSYQAKDWEYDNDRELNQCGTCTEL

Parental  KECHAIQNYTLWKVGDYGSLSGREKMMAEIYANGP-ISCGIMATEKMVNYTGGIYAEYHDKAYINHVISV
          K..HA.QNYTL..VGDYGSLS.RE.M.AEIY..GP.I.C...ATEK..NY.GGIY.E..D.AY.N.VI..
Retrocopy KDGHAVQNYTLK*VGDYGSLSRRE-MVAEIYTKGP<IGCSTRATEKTDNYIGGIYVENPDRAYVNCVIFL

Parental  AGWGVSDGTEYWIVRNSWGEPWGERGWM
          AGW.V...TEYW.V..SWGEP.....WM
Retrocopy AGWDVNHDTEYWTVQGSWGEPCSGQDWM

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	2.64 RPM
SRP017611_kidney	0.00 RPM	183.96 RPM
SRP017611_liver	0.00 RPM	120.20 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_383 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_383 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000012612	1 retrocopy	retro_dnov_2521,
Felis catus	ENSFCAG00000000845	1 retrocopy	retro_fcat_383 ,
Monodelphis domestica	ENSMODG00000016601	1 retrocopy	retro_mdom_1021,