RetrogeneDB ID:

retro_fcat_1277

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:C2:71843665..71844237(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSFCAG00000026737
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSFCAG00000005825
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_fcat_1277
GTGCCTCTCATGATTAACCAGGTCACCCAGGCCTTGGACCGCCAAACAGCTATTCAGCTGCTTAAGCTGGCCCACAAATA
CAGACCAGAGACAAAGCAAGAGAAGAAGCAGATATTGTTGGCCTGGAATGAGAAGAAAGCTGCCAGCAAAGGGCATGCCC
CCCTCGGTGGCCACCTGTCCTTCAAGCTGGGGTTAAAACTGTCACCACCTTAATGGAAAATAAGAAGTCTCTGCTGGTAG
TGGTTGCACATGATGCGGATCCCATTGAGTCGGTTGTCTTCCTGCCTGCCCTATGTCATAAGATGAGGGTCCCCCACTGC
ATTATCAAGGTGAAGGCCAGACTAGGGCATCTTGTCTACAGGAAGACCTGCACCAGTGTTGCCTTCACACAGGATAACTC
GGAAGACAAAGGTGCTCTGGCTAAGCTGATGGAAACCATTAGGACCAATTACAATGACAGAAATGATGACATTCACTGTC
ACCGAGGAGGTAACGTCCTGGGTCCAAAGTCGATGGCTCACATCGCCAAATTGGAAAAACCAAAGGCTAGAGAACTGGCC
ACCAAACCGGGC

ORF - retro_fcat_1277 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.6 %
Parental protein coverage: 72.08 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVPPAINQFTQALDRQTATQLLKLAHKYRPETKQEKKQRLLARAEKKAAGKGDVPT-KRPPVLRAGVNTVT
VP..INQ.TQALDRQTA.QLLKLAHKYRPETKQEKKQ.LLA..EKKAA.KG..P....PPVL.AGV.TVT
RetrocopyVPLMINQVTQALDRQTAIQLLKLAHKYRPETKQEKKQILLAWNEKKAASKGHAPL<RWPPVLQAGVKTVT
ParentalTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGRLVHRKTCTTVAFTQVNSEDKGA
TL.ENKK..LVV.AHD.DPIE.VVFLPALC.KM.VP.CIIK.KARLG.LV.RKTCT.VAFTQ.NSEDKGA
RetrocopyTLMENKKSLLVVVAHDADPIESVVFLPALCHKMRVPHCIIKVKARLGHLVYRKTCTSVAFTQDNSEDKGA
ParentalLAKLVEAVRTNYNDRYDEIRRHWGGNVLGPKSVARIAKLEKAKAKELATKLG
LAKL.E..RTNYNDR.D.I..H.GGNVLGPKS.A.IAKLEK.KA.ELATK.G
RetrocopyLAKLMETIRTNYNDRNDDIHCHRGGNVLGPKSMAHIAKLEKPKARELATKPG

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 0 .00 RPM
SRP017611_kidney 0 .00 RPM 0 .00 RPM
SRP017611_liver 0 .00 RPM 0 .00 RPM
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1277 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1277 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 27 parental genes, and 398 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000001170829 retrocopies
Bos taurus ENSBTAG000000115595 retrocopies
Canis familiaris ENSCAFG0000001768036 retrocopies
Callithrix jacchus ENSCJAG000000148273 retrocopies
Cavia porcellus ENSCPOG000000013244 retrocopies
Dasypus novemcinctus ENSDNOG000000244248 retrocopies
Dipodomys ordii ENSDORG000000064713 retrocopies
Felis catus ENSFCAG00000005825 20 retrocopies
Homo sapiens ENSG0000014830321 retrocopies
Gorilla gorilla ENSGGOG0000001444248 retrocopies
Loxodonta africana ENSLAFG000000064362 retrocopies
Macropus eugenii ENSMEUG0000001455016 retrocopies
Myotis lucifugus ENSMLUG0000000466610 retrocopies
Macaca mulatta ENSMMUG000000223419 retrocopies
Monodelphis domestica ENSMODG000000127543 retrocopies
Mus musculus ENSMUSG0000006264710 retrocopies
Nomascus leucogenys ENSNLEG0000001306822 retrocopies
Otolemur garnettii ENSOGAG0000001402716 retrocopies
Ochotona princeps ENSOPRG000000057264 retrocopies
Pongo abelii ENSPPYG0000001973052 retrocopies
Pteropus vampyrus ENSPVAG0000001704511 retrocopies
Rattus norvegicus ENSRNOG0000004909710 retrocopies
Sarcophilus harrisii ENSSHAG000000043374 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000036713 retrocopies
Tupaia belangeri ENSTBEG0000000859526 retrocopies
Tarsius syrichta ENSTSYG0000000546720 retrocopies
Tursiops truncatus ENSTTRG000000076453 retrocopies



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