RetrogeneDB ID: retro_fcat_1846

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F2:37618832..37619467(-)
• Located in intron of: ENSFCAG00000003667

Retrocopy information

• Ensembl ID: ENSFCAG00000025683
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GUCD1
• Ensembl ID: ENSFCAG00000001511
• Aliases: None
• Description: guanylyl cyclase domain containing 1 [Source:HGNC Symbol;Acc:14237]

Sequence

>retro_fcat_1846
GGAGACTTTGTGCGGCTGTCCGTGCCCATCATCCAGCAGCTCTACCCCTGGGACTGCGGCCTGGCCTGCTCCAAGATGGT
GCTGCGGTGCCTGGGCCAGCTGGGCGACAGTGAGTTCGAGAGCGCCCTGCAGGAGCGCGACTAACCGGGGGCATCTGGAC
TACTGACCTGGCCTACCTAATGCGCCACTGTGGCGTGAGGCACCGTTTCGGCACGCGGACCCTGGGCGTTGACAAGGGCT
ACAAGAACCAGTCCTTCTACAGGAAGCACTTTGACACAGAGGAGACCCGGGTGAACCAGGTGTTTGCACAAGCCAAGGCC
TGCAAGGTGTCTGTGGAAAAATGCACAGTGAGCGTGCAGGATATCCAGGAGCACCTGGCACAGGGTCACGTGGCCATCGT
GCTGGTGAACTCTGGGGTGTTGCACTGCGACCTCGGCTCCGGTCCTGTTGCGTACCGCTGCTTCGCCCCCAGCGGCCGCC
GCTGCTTCTGCCGGACCCCTGACCACCAGGGCCGCTTCGCTGTGCTGCCTGGCTGCAACCAGGCCACTGGCTGCATCTTC
TACAACAACCCAGCCTGTGCTGACCAAATGTGCGGCACCAGCATCAGTAACTTTGAGGAAGCCACTTATGGCACA

Alignment

ORF - retro_fcat_1846 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.65 %
• Parental protein coverage: 89.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GDFVQLPVPIIQQLYHWDCGLACSKMVLRYLGQLDDNEFESALQE-LRLTRSIWTIDLAYLMRHFGVRHR
          GDFV.L.VPIIQQLY.WDCGLACSKMVLR.LGQL.D.EFESALQE..RLT..IWT.DLAYLMRH.GVRHR
Retrocopy GDFVRLSVPIIQQLYPWDCGLACSKMVLRCLGQLGDSEFESALQE<ARLTGGIWTTDLAYLMRHCGVRHR

Parental  FCTQTLGVDKGYKNQSFYRKHFDTEETRVNQLFAQAKACKVLVEKCTVSVQDIQEHLAQGHVAIVLVNSG
          F.T.TLGVDKGYKNQSFYRKHFDTEETRVNQ.FAQAKACKV.VEKCTVSVQDIQEHLAQGHVAIVLVNSG
Retrocopy FGTRTLGVDKGYKNQSFYRKHFDTEETRVNQVFAQAKACKVSVEKCTVSVQDIQEHLAQGHVAIVLVNSG

Parental  VLHCDLCSSPVKYCCFAPSGHRCFCRTPDYQGHFIVLRGYNRATGCIFYNNPAYADRMCSTSISNFEEAR
          VLHCDL.S.PV.Y.CFAPSG.RCFCRTPD.QG.F.VL.G.N.ATGCIFYNNPA.AD.MC.TSISNFEEA.
Retrocopy VLHCDLGSGPVAYRCFAPSGRRCFCRTPDHQGRFAVLPGCNQATGCIFYNNPACADQMCGTSISNFEEA-

Parental  TSYGT
          ..YGT
Retrocopy -TYGT

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	4.94 RPM
SRP017611_kidney	0.00 RPM	12.99 RPM
SRP017611_liver	0.00 RPM	22.85 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1846 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1846 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
Canis familiaris	ENSCAFG00000013855	1 retrocopy	retro_cfam_80,
Felis catus	ENSFCAG00000001511	1 retrocopy	retro_fcat_1846 ,