RetrogeneDB ID:

retro_fcat_966

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:B4:64170375..64172109(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSFCAG00000026372
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:ZC3H14
Ensembl ID:ENSFCAG00000012898
Aliases:None
Description:zinc finger CCCH-type containing 14 [Source:HGNC Symbol;Acc:20509]


Retrocopy-Parental alignment summary:






>retro_fcat_966
ATTAGGAGTTTATGTTAGCTTCACGGTGTATTAGATAAACTTCGTTCTGTTACAACTGATCCCTCCAGTCTCAAGTCTTC
TGATACCAACATCTTTGATAATAACGTGTCTTCAAACAAGAGCAGTTTCGGTCGGGGAGACGAGAGAAGGCCTGAAGCTG
CAGTGCCACCCCTCGCAGTTGCTAGCACAAGACCTGAGAAAAGAGATTCCAGGGTTTCTACTAGTTCACAGGAGCAGAAA
ACCACTAATGTTAGACAGACTTACGATGATGGAGCTGGAACCCGATTAATGTCAACTGTGAAGCCTCTGAGGGAGCCAGC
ACCCTCTGAAGATGTGATTGATATTAAGCCAGAACCAGATGATCTCATTGATGAAGACCTCAATTTTGTGCAGGAGAATC
CCTTATCTCAGAAAAAACCGACAGTGACGCTTATGTATGGTTCTTCTCGCCCTTCTATTGAAATTTATCGACCACCTGCA
AGTCGAAATGCAAATAGTGGTGCTCATTTAAACAGGTTGCAATTTCAGCAGCAACAAAACAATATTCATGCTGCCAAGCA
ACCTGATATACAGAACAGCCGGGTATATGAAACAGGACGTTTGTGTGAACAGGAAGTGCTTAACAGCTTAGAAGGGACTT
CTAGTCCCTTCTTCAGAAACAACTCAGAAAAAATGAGTATTGAGGAAGAAAACTTTTGGAAGAGAAAGTTGCCTGTGGTA
AGTTCCGTTGTTAAAGTAAAAAAATTCAATCATGATGGAGAAGAGGAGGAGGAAGATGATGATTGTGGGTCTCATACAGG
AAGCATCTCCAACAGTGTGTCAGTGCCAGCAAAGCCTGAAAGGAGACCTTCACTTCCACCTTCTAAACAAGCTAACAAGA
ATCTAATTTTGAAGGCTGTATCTGAAGCTCAAGAATCTGTAACAAAAACAACGAACTATTCTACAGTCTCACAGAAACAG
ACACTTCCAGTTGCTCCCAGAACTCGAACTTCTCAAGAAGAATTGCTGGCAGAAATGGTCCAGGGGCAAAGCAGGACCCC
CAGGATAAGTCCTCCCATTAAAGAAGAGGAAACAAAAGGAGATAATATAGAAAAAAGTCAAGGAGCTCCACAGAGGCAGT
TGTTATCCCGACTACAAATCGACCCAGTAATGGCAGAAACTCTGCAGATCAGTCGAGATTACTATGACATGGAATCCATG
GTCCATGCAGACACAAGATCATTTATTCTGAAGAAGCCAAAGCTGTCTGAGGAAATAGTAGTGGCACCAAACCAGGAGTC
GGGGATGAAGACTGCAGATACCCTTCGGGTACTTTCAGGACACCTTATGCAGACACGAGATCTTGTACAACCAGATAAAC
CTGCAAGTCCCAAGCTTATAGTGACGCTGGATGGTGTCCCCAGCCCCCCAGGATACATGTCAGATCAAGAGGAGGACATG
TGCTTTGAAGGAATGAAACGTGTAAACCAAACTGCAGCCGCGAGCAAGGGACTCAGAGGTCTCCTCCACCCACAGCAGTT
GCAGTTGATGAGCAGGCAGCTTGATGACCCAAATGGTAGCTTTGCAAATGCTGAGATGAGTGAACTGAGTGTGGCCCGGA
AACCAGAAAAACTTCTGGAGCGTTGCAAGTACTGGCCTGCCTGTAAAAATGGGGATGAGTGTGCTTACCATCATCCTGTT
TCACCTTGCAAAGCCTTCCCCAATTGTACATTTGCTGAGAAGTGTTTGTTTATC

ORF - retro_fcat_966 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.37 %
Parental protein coverage: 79.72 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalIRFTVWLHGVLDKLRSVTTDPSSLKSSDTNIFDNNVSSNKSSFGRGDERRHEAAVPPLAVASTRPEKRDS
IR....LHGVLDKLRSVTTDPSSLKSSDTNIFDNNVSSNKSSFGRGDERR.EAAVPPLAVASTRPEKRDS
RetrocopyIRSLC*LHGVLDKLRSVTTDPSSLKSSDTNIFDNNVSSNKSSFGRGDERRPEAAVPPLAVASTRPEKRDS
ParentalRVSTSSQEQKTTNVRQTYDDGAATRLMSTVKPLREPAPSEDVIDIKPEPDDLIDEDLNFVQENPLSQKKP
RVSTSSQEQKTTNVRQTYDDGA.TRLMSTVKPLREPAPSEDVIDIKPEPDDLIDEDLNFVQENPLSQKKP
RetrocopyRVSTSSQEQKTTNVRQTYDDGAGTRLMSTVKPLREPAPSEDVIDIKPEPDDLIDEDLNFVQENPLSQKKP
ParentalTVTLTYGSSRPSIEIYRPPASRNADSGAHLNRLQFQQQQNNIHAAKQPDLQNSRVYETGRLCEQEVLNSL
TVTL.YGSSRPSIEIYRPPASRNA.SGAHLNRLQFQQQQNNIHAAKQPD.QNSRVYETGRLCEQEVLNSL
RetrocopyTVTLMYGSSRPSIEIYRPPASRNANSGAHLNRLQFQQQQNNIHAAKQPDIQNSRVYETGRLCEQEVLNSL
ParentalEETYSPFFRNNSEKMSIEEENFRKRKLPVVSSVVKVKKFNHDGEEEEEDDDCGSRTGSISSSVSVPAKPE
E.T.SPFFRNNSEKMSIEEENF.KRKLPVVSSVVKVKKFNHDGEEEEEDDDCGS.TGSIS.SVSVPAKPE
RetrocopyEGTSSPFFRNNSEKMSIEEENFWKRKLPVVSSVVKVKKFNHDGEEEEEDDDCGSHTGSISNSVSVPAKPE
ParentalRRPSLPPSKQANKNLILKAISEAQESVTKTTNYSTVSQKQTLPVAPRTRTSQEELLAEMVQGQSRTPRIS
RRPSLPPSKQANKNLILKA.SEAQESVTKTTNYSTVSQKQTLPVAPRTRTSQEELLAEMVQGQSRTPRIS
RetrocopyRRPSLPPSKQANKNLILKAVSEAQESVTKTTNYSTVSQKQTLPVAPRTRTSQEELLAEMVQGQSRTPRIS
ParentalPPIKEEETKGDNIEKSQGAPQRQLLSRLQIDPVMAETLQISQDYYDMESMVHADTRSFILKKPKLSEEIV
PPIKEEETKGDNIEKSQGAPQRQLLSRLQIDPVMAETLQIS.DYYDMESMVHADTRSFILKKPKLSEEIV
RetrocopyPPIKEEETKGDNIEKSQGAPQRQLLSRLQIDPVMAETLQISRDYYDMESMVHADTRSFILKKPKLSEEIV
ParentalVAPNQESGMKTADTLRVLSGHLMQTRDLVQPDKPASPKFIVTLDGVPSPPGYMSDQEEDMCFEGMKPVNQ
VAPNQESGMKTADTLRVLSGHLMQTRDLVQPDKPASPK.IVTLDGVPSPPGYMSDQEEDMCFEGMK.VNQ
RetrocopyVAPNQESGMKTADTLRVLSGHLMQTRDLVQPDKPASPKLIVTLDGVPSPPGYMSDQEEDMCFEGMKRVNQ
ParentalTAAASKGLRGLLHPQQLQLMSRQLDDPNGSFANAEMSELSVAQKPEKLLERCKYWPACKNGDECAYHHPV
TAAASKGLRGLLHPQQLQLMSRQLDDPNGSFANAEMSELSVA.KPEKLLERCKYWPACKNGDECAYHHPV
RetrocopyTAAASKGLRGLLHPQQLQLMSRQLDDPNGSFANAEMSELSVARKPEKLLERCKYWPACKNGDECAYHHPV
ParentalSPCKAFPNCKFAEKCLFV
SPCKAFPNC.FAEKCLF.
RetrocopySPCKAFPNCTFAEKCLFI

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






RNA-Seq - click to see more details

(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 1 .15 RPM 40 .74 RPM
SRP017611_kidney 0 .82 RPM 55 .24 RPM
SRP017611_liver 0 .51 RPM 28 .71 RPM

ChIP-Seq - click to see more details

Felis catus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_fcat_966 retrocopy.

TSS - click to see more details

Felis catus was not studied using FANTOM5 data.

Lab - click to see more details

retro_fcat_966 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 3 parental genes, and 3 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000304531 retrocopy
retro_btau_331,
Callithrix jacchus ENSCJAG000000173451 retrocopy
retro_cjac_1429,
Felis catus ENSFCAG00000012898 1 retrocopy
retro_fcat_966 ,


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