RetrogeneDB ID:

retro_fcat_1349

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:C2:71933598..71934009(-)
Located in intron of:ENSFCAG00000018154
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RAB5A
Ensembl ID:ENSFCAG00000004455
Aliases:None
Description:RAB5A, member RAS oncogene family [Source:HGNC Symbol;Acc:9783]


Retrocopy-Parental alignment summary:






>retro_fcat_1349
ATGGCTAATGGAGGAGCAACAAGACCCAACAGGCCAAATACTGTAGATACAATATGCCAGTTCAAACTAGTACTTCTGGA
AGAGTCTGCCCTTGGCAAATCAAGCCTAGTTCTTTGTTTTGTGAAGGGCCAGTTTCATGAATTTCAAGAGAATACTGCTG
TGGCTGCTTCTGTAACCCAAATTGGCTAGCTTGATAATACAACTGTGAAGTCTGAAGTAGGGGACGCAGCTGGTCAAGAA
TCATACTATAGCCTAGCACCAATGTACCACAGAGAAGCACAGGTAGCCAGACTTGAATATGAGATCTCAAATGAGGAGTT
CTTTGCAAGAGCAAAAAACTGGGTTAAAGAACTTCAGAGGCAAGCAAGTCCTAACACTGTCATAGCTTTACCAGGAAACA
AAGCTGACCTA

ORF - retro_fcat_1349 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.18 %
Parental protein coverage: 57.08 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMANRGATRPNGPNTGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVK
MAN.GATRPN.PNT...ICQFKLVLL.ESA.GKSSLVL.FVKGQFHEFQE.T..AA..TQ...LD.TTVK
RetrocopyMANGGATRPNRPNTVDTICQFKLVLLEESALGKSSLVLCFVKGQFHEFQENTAVAASVTQIG*LDNTTVK
ParentalFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADL
.E..D.AGQE.Y.SLAPMY.R.AQ.A...Y.I.NEE.FARAKNWVKELQRQASPN.VIAL.GNKADL
RetrocopySEVGDAAGQESYYSLAPMYHREAQVARLEYEISNEEFFARAKNWVKELQRQASPNTVIALPGNKADL

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .00 RPM 33 .74 RPM
SRP017611_kidney 0 .00 RPM 13 .50 RPM
SRP017611_liver 0 .00 RPM 10 .21 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1349 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1349 was not experimentally validated.

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.

Parental genes homology:
Parental genes homology involve 19 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000009541 retrocopy
Bos taurus ENSBTAG000000463851 retrocopy
Callithrix jacchus ENSCJAG000000037311 retrocopy
Cavia porcellus ENSCPOG000000053222 retrocopies
Dipodomys ordii ENSDORG000000124291 retrocopy
Felis catus ENSFCAG00000004455 2 retrocopies
retro_fcat_1349 , retro_fcat_984,
Homo sapiens ENSG000001445661 retrocopy
Gorilla gorilla ENSGGOG000000159811 retrocopy
Loxodonta africana ENSLAFG000000083211 retrocopy
Macaca mulatta ENSMMUG000000069922 retrocopies
Monodelphis domestica ENSMODG000000147932 retrocopies
Mus musculus ENSMUSG000000178311 retrocopy
Nomascus leucogenys ENSNLEG000000034341 retrocopy
Oryctolagus cuniculus ENSOCUG000000122001 retrocopy
Pongo abelii ENSPPYG000000140742 retrocopies
Pan troglodytes ENSPTRG000000146821 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000262291 retrocopy
Tarsius syrichta ENSTSYG000000076423 retrocopies
Tursiops truncatus ENSTTRG000000013741 retrocopy



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