RetrogeneDB ID:

retro_fcat_1871

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:JH408642.1:13678..15439(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DNAJC10
Ensembl ID:ENSFCAG00000026076
Aliases:None
Description:DnaJ (Hsp40) homolog, subfamily C, member 10 [Source:HGNC Symbol;Acc:24637]


Retrocopy-Parental alignment summary:






>retro_fcat_1871
AATAATGTTAACGTAGAGAGTGATTTTCAAAAATAAATAGAGCATAAGAAGTAATCAAAGATGAAGATCTGTAGGAAAAT
TATGACAAATACGGAGAAAAGGGACTTGCAGATGATCCAGAAGGTGGGCCTGTATGAACGCTGGGATTTTGATCGTTATG
ATTTTGGTATTTATGATGATGATCTTGAAAGCATGACACTGGATAGAAGAGAATTGGATGCTGCTGTTCATTCTGGAGAA
CGGTAGTTTGTGAACTTTTACTCCCCAGGATGTTCACACTGTCATGAATTAGCTCCCACATGGAGAGACTGTGCTAAAGA
AGTAGATGGATTACTTCGAATTGGTGCTGTTAACTGTGGTGATGATAGAATGCTTTGCCGAATGAAAGGAGTCAATGGAT
CTCCCAGCCTCTTCCTTTTTAGGTCTGGAACGGCCACAGTGAAATATCACAGGCACAGATCAAAGGAAAGTTTGGTGAGT
TTCGCCATGCAGCATGTTAGAAACACAGTGATGGAATTATGGACGGGAAATTTTGTTCACTCCATAGAAACTGCTTTTGC
TGCTGGTATTGGCCAGCTGATTACTTTCTGTTGCAAAGGAGGAGATTGTTTAACTTCATAGACACGACTCAGGCTCAGGG
GCATGTTGGATGGTCTTGTTAATGTAAGATGGATGGTCTGTGCCGCCCAGGACAAACTTTGTGAAAGTCTGGATATTATA
AGTACTACTGCCTATTTTCCTCTGGCGCCACATTAAATACCAGAGAGAAAAGCAGCGTTTTGTTCCTTAACTCATTGGAT
GCTCGAGAAATATATTTGGAAATCATGCACAGTCTTCCAGATTTTGAGCTACTTTTGGCAAATACACTAACGGATCGATT
GGCTCATCATCGGTGGCTCTTATCGTTTAGTTTCAGAAAACATGAAAATCCAAATGATCCTGAGTTGAGGGAACTAAAAA
CTCTACTCAAAAGTGAACATATTCAAGTTGGCAAGGCTGACTGTCCCTCTGCACCAGACATCTGTAGTAATCTCTCTGTA
TTTCAGCCATGTCTAGCAGTATTTAAAGGACAAGGAACCAAAGAATATGAAATTCATCATGGAAAGAAGATTCTATATGA
TATACTAGCCTTTGCCAAAGAAAGTGGTAATTCTCATGTTGCCACACTTGGACCTCAAAATTTTCCTGCCGATGACAGGA
ACCGTGGCTTGTTGATTTGTTTGTGCCATGGTGTCCACCATGTCAAGCTTTATTGCCAGAGTTACCAAAAGCATCAAAGC
ATCCGTGTGGTCAGATTAAGTTTGGTACACTAGATGGTACGGTTCACGAGGGACCCTGTGACACGTATAAGATTCAGGCG
GATCCAACAACAGTGGTATTCAACCAATCCGAGGTTCATGAATAAGAAGGACATCACTCTGCTGAACAACAGATCTTGGA
ATTCATAGAGGATCCTAGGAACCTTCAGTGACCTCCCTGACACCCACCACTTTCAATGAACTAGCTAAACAAAGAAACCA
TGATGAAGTCTGGATGGTTGACTTCTACTCCCATGGTGTCATCCATGTCAAGTCCTAATGCCAGAATGGAAAAGAATGGC
CCGGACACTAACTGGACAGTTACCGTGGGCAGTATAGACTGCCAACAGTATCATTCTTTTTGTGCCCAAGAAAATGTTCA
GAGATACCCTGAGATAAGATTTCCCCCCCAAAACCAAATAAGGTTTTTCAGTATCACAGTTACAATGGCTAGAAGAGAGA
T

ORF - retro_fcat_1871 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.77 %
Parental protein coverage: 74.18 %
Number of stop codons detected: 6
Number of frameshifts detected 8


Retrocopy - Parental Gene Alignment:

ParentalNNPNAHSDFLK-INRAYEVLKDEDLRKKYDKYGEKGLADNQEGGQ-YESWNYYRYDFGIYDDDPEIITLD
NN.N..SDF.K.INRA.EV.KDEDL...YDKYGEKGLAD..EGG..YE.W...RYDFGIYDDD.E..TLD
RetrocopyNNVNVESDFQK<INRA*EVIKDEDL*ENYDKYGEKGLADDPEGGP>YERWDFDRYDFGIYDDDLESMTLD
ParentalRREFDAAVNSGELWFVNFYSPGCSHCHDLAPTWRDFAKEVDGLLRIGAVNCGDDRMLCRMKGVNSYPSLF
RRE.DAAV.SGE..FVNFYSPGCSHCH.LAPTWRD.AKEVDGLLRIGAVNCGDDRMLCRMKGVN..PSLF
RetrocopyRRELDAAVHSGER*FVNFYSPGCSHCHELAPTWRDCAKEVDGLLRIGAVNCGDDRMLCRMKGVNGSPSLF
ParentalIFRSGMAAVKYHGDRSKESLVNFAMQHVRSTVTELWTGNFVNSIETAFAAGVGWLITFCSKGGDCLTSQT
.FRSG.A.VKYH..RSKESLV.FAMQHVR.TV.ELWTGNFV.SIETAFAAG.G.LITFC.KGGDCLTS.T
RetrocopyLFRSGTATVKYHRHRSKESLVSFAMQHVRNTVMELWTGNFVHSIETAFAAGIGQLITFCCKGGDCLTS*T
ParentalRLRLSGMLDGLVNIGWMDCATQDNLCKSLDITTSTTAYFP-PGATLNNKEKSSVLFLHSLDAKEIYLEIM
RLRL.GMLDGLVN..WM.CA.QD.LC.SLDI..STTAYFP..GATLN..EKSSVLFL.SLDA.EIYLEIM
RetrocopyRLRLRGMLDGLVNVRWMVCAAQDKLCESLDI-ISTTAYFP<SGATLNTREKSSVLFLNSLDAREIYLEIM
ParentalHNLPDFELLSANTLEDRLAHHRWLLFFNFGKHENSNDPELKKLKTLLKSEHIQVGKFDCSSAPDICSNLY
H.LPDFELL.ANTL.DRLAHHRWLL.F.F.KHEN.NDPEL..LKTLLKSEHIQVGK.DC.SAPDICSNL.
RetrocopyHSLPDFELLLANTLTDRLAHHRWLLSFSFRKHENPNDPELRELKTLLKSEHIQVGKADCPSAPDICSNLS
ParentalVFQPCLAVFKGQGTKEYEIHHGKKILYDILAFAKESVNSHVTTLGPQNFPANDK-EPWLVDFFAPWCPPC
VFQPCLAVFKGQGTKEYEIHHGKKILYDILAFAKES.NSHV.TLGPQNFPA.D..EPWLVD.F.PWCPPC
RetrocopyVFQPCLAVFKGQGTKEYEIHHGKKILYDILAFAKESGNSHVATLGPQNFPADDR<EPWLVDLFVPWCPPC
ParentalRALLPELRKASKHLYGQLKFGTLDCTVHEGLCNMYNIQAYPTTVVFNQSNVHEYEGHHSAE-QILEFIED
.ALLPEL.KASKH..GQ.KFGTLD.TVHEG.C..Y.IQA.PTTVVFNQS.VHE.EGHHSAE.QILEFIED
RetrocopyQALLPELPKASKHPCGQIKFGTLDGTVHEGPCDTYKIQADPTTVVFNQSEVHE*EGHHSAEQQILEFIED
ParentalLMN-PSVISLTPTTFSELVKQRKHDEVWMVDFYS-PWCHPCQVLMPEWKRMARTLTG-LINVGSIDCQQY
..N.PSV.SLTPTTF.EL.KQR.HDEVWMVDFYS.PWCHPCQVLMPEWKRMARTLTG....VGSIDCQQY
RetrocopyPRN<PSVTSLTPTTFNELAKQRNHDEVWMVDFYS<PWCHPCQVLMPEWKRMARTLTG<TVTVGSIDCQQY
ParentalHSFCAQENVRRYPEIRFFPQ-KSNKAFQYHSYNGWNRD
HSFCAQENV.RYPEIRF.PQ.K.NK.FQYHSYNG..RD
RetrocopyHSFCAQENVQRYPEIRFPPQ<KPNKVFQYHSYNG*KRD

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 .23 RPM 69 .21 RPM
SRP017611_kidney 0 .00 RPM 64 .31 RPM
SRP017611_liver 0 .00 RPM 25 .88 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_1871 retrocopy.

TSS - click to see more details

Felis catus was not studied using FANTOM5 data.

Lab - click to see more details

retro_fcat_1871 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 2 parental genes, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000083901 retrocopy
retro_btau_1105,
Felis catus ENSFCAG00000026076 1 retrocopy
retro_fcat_1871 ,


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