RetrogeneDB ID:

retro_fcat_503

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:A3:109088145..109088560(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:YBX1
Ensembl ID:ENSFCAG00000022604
Aliases:None
Description:Y box binding protein 1 [Source:HGNC Symbol;Acc:8014]


Retrocopy-Parental alignment summary:






>retro_fcat_503
CCCCGGAAGGTTCGTGGCAGGGTAGGTGACCAGGGATGGCAGAGTTTGATGTTGAAGGAGAAAAGGGTGTGGAGGCAGCA
AATGTGGCAGGCCCTGGCGGAGCTCCAGGGCAAAGCAGTAAATATGCAGCCGACCGTGACCTTGAGAAATGCCCTCGACG
TGACAGGGGTCCTCCATGCAATTCCCAGCAAAATTACCCAAATAGCGAGAGTAGGGCAAAGAAGGAGGGATCAGAGCATG
TTCCAGAAGGCCAGGCCTCACAGCACCGCCCTCCGGCAGGCCACCGTTCCCACCTACCTGCTTGCAGAGACCCACTGGGA
GTCAGCCACAGCCTTCTGACCCTCCAGCACAGGGAGAGGTAATGGAGGGAGCAGACAACCAGAGTGCAGGAGAACAAGGT
AGGCCAGTGAGACAG

ORF - retro_fcat_503 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.49 %
Parental protein coverage: 56.45 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalPRKYLRSVGDGE-TVEFDVVEGEKGAEAANVTGPGGVPVQGSKYAADRNHYRRYPRRRGPPRNYQQNYQN
PRK....VGD.....EFDV.EGEKG.EAANV.GPGG.P.Q.SKYAADR.......R.RGPP.N.QQNY.N
RetrocopyPRKVRGRVGDQG<MAEFDV-EGEKGVEAANVAGPGGAPGQSSKYAADRDLEKCPRRDRGPPCNSQQNYPN
ParentalSESGEKNEGSESAPEGQAQQRRPYRRRR-FPPYYMRRPYGRRPQYSNPPVQGEVMEGADNQGAGEQGRPV
SES..K.EGSE..PEGQA.Q.RP....R.FPP....RP.G..PQ.S.PP.QGEVMEGADNQ.AGEQGRPV
RetrocopySESRAKKEGSEHVPEGQASQHRPPAGHR<FPPTCLQRPTGSQPQPSDPPAQGEVMEGADNQSAGEQGRPV
ParentalRQ
RQ
RetrocopyRQ

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 49 .47 RPM
SRP017611_kidney 0 .00 RPM 265 .48 RPM
SRP017611_liver 0 .00 RPM 333 .60 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_503 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_503 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 125 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000004949 retrocopies
Canis familiaris ENSCAFG000000025414 retrocopies
Callithrix jacchus ENSCJAG000000031556 retrocopies
Cavia porcellus ENSCPOG000000108883 retrocopies
Felis catus ENSFCAG00000022604 6 retrocopies
Homo sapiens ENSG000000659784 retrocopies
Loxodonta africana ENSLAFG000000075971 retrocopy
Microcebus murinus ENSMICG0000001498419 retrocopies
Macaca mulatta ENSMMUG000000131365 retrocopies
Nomascus leucogenys ENSNLEG000000123247 retrocopies
Oryctolagus cuniculus ENSOCUG000000280472 retrocopies
Otolemur garnettii ENSOGAG0000000678425 retrocopies
Pongo abelii ENSPPYG000000014667 retrocopies
Pteropus vampyrus ENSPVAG000000055047 retrocopies
Sorex araneus ENSSARG000000078961 retrocopy
Tupaia belangeri ENSTBEG000000156429 retrocopies
Tarsius syrichta ENSTSYG000000069156 retrocopies
Tursiops truncatus ENSTTRG000000013532 retrocopies
Vicugna pacos ENSVPAG000000000682 retrocopies



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