RetrogeneDB ID:

retro_fcat_13

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:X:22658999..22661345(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSFCAG00000026694
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:SMEK2
Ensembl ID:ENSFCAG00000026457
Aliases:None
Description:SMEK homolog 2, suppressor of mek1 (Dictyostelium) [Source:HGNC Symbol;Acc:29267]


Retrocopy-Parental alignment summary:






>retro_fcat_13
ATGGCGGACAAGTGTCGCGTGAAACTCTACTCCCTGAACCGAGATCAACAATGGGATGACCTAGGCACCGGGCACATCTC
TTCGGCTTACGTGGAGCACCTCCAGAGCGTGTGTCTGCTAGTTCAGTCGGATTCCAGTGAGGCGCTAATCCTGGAGTCGA
AGATCAATTCAAATACGCCGTACCAGAGGCAACAGGAAACGCTGATTGTTTGGTCAGAAGCGGAGGGCCACGGTATGGCT
TTAAGTTTCCAGGATGCCGAAGGTTGTCAGCAGATCTGGGAAGACATTTGCCGAGTTCAAGGTAAAGATCCGTCTGTCTG
TATCACACAAGACCTCTTAGATGAATCAGATCAGTTTGATGACATACTCGAAACTGCTGATGTGTTGTTTGACTTGCCTA
GCTGTGAACTCGGTAAACTTGAAGATATTGATGACTTTGTTTCCTCGATTCTTGCTTTACCTTTCCCTATCCATAAGGAA
AGACTGGCTCTGATCTTAGAAAATGGGAACTATATTAAAAATTTGCTGCAGCTGTTCCACACTTGTGAAGACCAAGGGGA
CACTGAAGGTTTACACCATTTGTATGAAATTATTAAAGGCATCTTATTCCTTAACAAGACATCTCTGTTTGAGATCATGT
TTTCTGATGAGTGTATCATGGATGTGGTGGGATGCCTCGAATATGACCCTGCAATGGCTCAGCCGAAAAGGCATAGGGAA
TTCTTGACTCAACATGCGAAGTTCAAGGAAGTTGTACCAATAACGGACTGTGAACTTATGCAAAAGATACATCAGACCTA
TAGGGTACAGTACATTCACGACATCCTTATGCCGATACCATCCATGTTTGAAGAGAATTTTCTTTCTACTCTTACAACTT
TTATTTTCCTCAACAAGGTCGAGATAGTCCGCATGCTGCACGAAGATGACAAGTTTTTGTCTGAAGTTTTTGTGCAGCTA
AGGAACGAGACTATAGATGATGATAAACAGCGCGAGTTGCTATTTTTCTTCAGGGAATTCTGTAAATTTTCGCAGACATT
ACAGCCTCCGAACAAGGATGCCCTCTTCAAAACATTGACGCATTTGGGAATTCTTCCTGTTCTGAAAACCGTGATGAGCA
GGAAGGATTTGCAGATACGATCAGCTGCTACCGATATACTTACTTATCTAGTAGAGTGTAGTCCATCCATGATCCGAGAA
TTTATAATGGAAGAAGCCCAGCAGAGTGTAGATGGTAACCTTTTCATTAACTTAATAAGTGAGCAAATGATCTGTGACAC
TGATCCTGAGCTGGGAGGTGCTATTCATTTAATGGAACTTATTCGTGCTCTAATCCATCCTGAAAATATGCTGTCAACAC
CTAGTAAATGCGAAAGAAGTGAGTTTCTATATTTCTTCTACAAGCATTGTATACAGAACTTTATAGCACCACTTTTTGCC
ATCACTTCAGAAAATATATGTGAAGGGGATAATGTAGTTGGAGCTGACAAAAACAGCCCCAATAATTATCAAACAGCAGG
GCTGCTTTCTTTAATTTTGGAGCTGCTCACATTTTGTGTGCAACATCACACATATTACATAAAAAACTATATTTTGAGCA
ATGACTTGCTAAGAAGAGTCTTGATCTTGATGAGTTCAAAGCACACTTTCCTGACTCTGTCTGCTCTTCGCTTTATGAGA
GGGATGATTGGCCTTAAAGATGAACTTTATAATTATTACATCATCAAGGGAAATCTTTTTGAGCCAGTTGTAAATGCTTT
TCTGAAAAACGGGACTCGGTACAATATGTTGAATTCAGCTGTTATTGAGCTGTTTGAATATATAAGAGTGGAAAATATCA
AATCTCTTGTTATACATATAGTTGAGAAGTTTTATAAAACACTTGAATCGATTGAATATGTTCAGACATTCAAAGGATTG
AAGATCAGATATGACGAAGAAACAGATCAACAAAATCTAATTCGGAAGAATTTACATTCTATACTGTATAGTCACATACT
CTGCAGAGGAATCAGAGTCTTGGAGAAGAAGGAAAAAATGTGTATTAAAGAAGATTCAAAGGAAGAAGAAGCAGTTATGC
CACCATTGGAAGATGATTTTCCAGATCCTTATGACAAGGTTATGGAGACTAAAAACCCAAAAGAAAATGAAGACAAGGTA
GATCTTCCTAAAAGAACATCTTCTGGGAGCTACAAAATCAGTTCATCCCCTTCTGCTGGTGATGCTAATGAAACGAGTAG
CCAGAGCAGTAGCAGCACGGTTGGCTTAAAGAATGATCCAGATGATGAAGAAAAAGATGAAGGAGATGAAACATCGCCCA
AGAAGAAACCACATCTTAGCTCGTAA

ORF - retro_fcat_13 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.14 %
Parental protein coverage: 85.37 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalRVKVYTLNEDRQWDDRGTGHVSSTYVEELKGMSLLVRAESDGSLLLESKINPNTAYQKQQDTLIVWSEAE
RVK.Y.LN.D.QWDD.GTGH.SS.YVE.L....LLV...S...L.LESKIN.NT.YQ.QQ.TLIVWSEAE
RetrocopyRVKLYSLNRDQQWDDLGTGHISSAYVEHLQSVCLLVQSDSSEALILESKINSNTPYQRQQETLIVWSEAE
ParentalNYDLALSFQEKAGCDEIWEKICQVQGKDPSVEVTQDLIDESEEERFEEMPETSH-LIDLPTCELNKLEEI
....ALSFQ...GC..IWE.IC.VQGKDPSV..TQDL.DES....F....ET...L.DLP.CEL.KLE.I
RetrocopyGHGMALSFQDAEGCQQIWEDICRVQGKDPSVCITQDLLDESDQ--FDDILETADVLFDLPSCELGKLEDI
ParentalADLVTSVLSSP--IRREKLALALENEGYIKKLLQLFQACENLENTEGLHHLYEIIRGILFLNKATLFEVM
.D.V.S.L..P..I..E.LAL.LEN..YIK.LLQLF..CE....TEGLHHLYEII.GILFLNK..LFE.M
RetrocopyDDFVSSILALPFPIHKERLALILENGNYIKNLLQLFHTCEDQGDTEGLHHLYEIIKGILFLNKTSLFEIM
ParentalFSDECIMDVVGCLEYDPALAQPKRHREFLTKTAKFKEVIPITDSELRQKIHQTYRVQYIQDIILPTPSVF
FSDECIMDVVGCLEYDPA.AQPKRHREFLT..AKFKEV.PITD.EL.QKIHQTYRVQYI.DI..P.PS.F
RetrocopyFSDECIMDVVGCLEYDPAMAQPKRHREFLTQHAKFKEVVPITDCELMQKIHQTYRVQYIHDILMPIPSMF
ParentalEENFLSTLTSFIFFNKVEIVSMLQEDEKFLSEVFAQLTDEATDDDKRRELVNFFKEFCAFSQTLQPQNRD
EENFLSTLT.FIF.NKVEIV.ML.ED.KFLSEVF.QL..E..DDDK.REL..FF.EFC.FSQTLQP.N.D
RetrocopyEENFLSTLTTFIFLNKVEIVRMLHEDDKFLSEVFVQLRNETIDDDKQRELLFFFREFCKFSQTLQPPNKD
ParentalAFFKTLAKLGILPALEIVMGMDDLQVRSAATDIFSYLVEFSPSMVREFVMQEAQQSDDDILLINVVIEQM
A.FKTL..LGILP.L..VM...DLQ.RSAATDI..YLVE.SPSM.REF.M.EAQQS.D..L.IN...EQM
RetrocopyALFKTLTHLGILPVLKTVMSRKDLQIRSAATDILTYLVECSPSMIREFIMEEAQQSVDGNLFINLISEQM
ParentalICDTDPELGGAVQLMGLLRTLIDPENMLATTNKTEKSEFLNFFYNHCMHVLTAPLLTNTSEDKCEKDNIV
ICDTDPELGGA..LM.L.R.LI.PENML.T..K.E.SEFL.FFY.HC.....APL...TSE..CE.DN.V
RetrocopyICDTDPELGGAIHLMELIRALIHPENMLSTPSKCERSEFLYFFYKHCIQNFIAPLFAITSENICEGDNVV
ParentalGSNKNSTICPDNYQTAQLLALILELLTFCVEHHTYHIKNYIMNKDLLRRVLVLMNSKHTFLALCALRFMR
G..KNS...P.NYQTA.LL.LILELLTFCV.HHTY.IKNYI...DLLRRVL.LM.SKHTFL.L.ALRFMR
RetrocopyGADKNS---PNNYQTAGLLSLILELLTFCVQHHTYYIKNYILSNDLLRRVLILMSSKHTFLTLSALRFMR
ParentalRIIGLKDEFYNRYITKGNLFEPVINALLDNGTRYNLLNSAVIELFEFIRVEDIKSLTAHIVENFYKALES
..IGLKDE.YN.YI.KGNLFEPV.NA.L.NGTRYN.LNSAVIELFE.IRVE.IKSL..HIVE.FYK.LES
RetrocopyGMIGLKDELYNYYIIKGNLFEPVVNAFLKNGTRYNMLNSAVIELFEYIRVENIKSLVIHIVEKFYKTLES
ParentalIEYVQTFKGLKTKYEQEKDRQNQKLNSVPSILRSNRFRRDAKALEEDEEMWFNEDEEEEGKAVVAPVEKS
IEYVQTFKGLK..Y..E.D.QN.......SIL.S....R....LE..E.M...ED..EE..AV..P.E..
RetrocopyIEYVQTFKGLKIRYDEETDQQNLIRKNLHSILYSHILCRGIRVLEKKEKMCIKEDSKEE-EAVMPPLEDD
ParentalKPE
.P.
RetrocopyFPD

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 0 .00 RPM 94 .00 RPM
SRP017611_kidney 0 .00 RPM 126 .35 RPM
SRP017611_liver 0 .00 RPM 86 .03 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_13 retrocopy.

TSS - click to see more details

Felis catus was not studied using FANTOM5 data.

Lab - click to see more details

retro_fcat_13 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 18 parental genes, and 18 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000038431 retrocopy
retro_amel_48,
Bos taurus ENSBTAG000000005451 retrocopy
retro_btau_232,
Canis familiaris ENSCAFG000000028601 retrocopy
retro_cfam_226,
Equus caballus ENSECAG000000138191 retrocopy
retro_ecab_23,
Echinops telfairi ENSETEG000000024201 retrocopy
retro_etel_1699,
Felis catus ENSFCAG00000026457 1 retrocopy
retro_fcat_13 ,
Homo sapiens ENSG000001380411 retrocopy
retro_hsap_4799,
Loxodonta africana ENSLAFG000000178251 retrocopy
retro_lafr_791,
Myotis lucifugus ENSMLUG000000038751 retrocopy
retro_mluc_994,
Macaca mulatta ENSMMUG000000070011 retrocopy
retro_mmul_238,
Mustela putorius furoENSMPUG000000024351 retrocopy
retro_mputfur_92,
Nomascus leucogenys ENSNLEG000000093381 retrocopy
retro_nleu_1112,
Oryctolagus cuniculus ENSOCUG000000068801 retrocopy
retro_ocun_9,
Otolemur garnettii ENSOGAG000000098371 retrocopy
retro_ogar_140,
Pan troglodytes ENSPTRG000000119331 retrocopy
retro_ptro_3191,
Sus scrofa ENSSSCG000000083981 retrocopy
retro_sscr_1187,
Ictidomys tridecemlineatus ENSSTOG000000062761 retrocopy
retro_itri_63,
Tursiops truncatus ENSTTRG000000000271 retrocopy
retro_ttru_1397,




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