RetrogeneDB ID:

retro_fcat_1913

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:X:44797903..44799397(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSFCAG00000001558
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:GSPT1
Ensembl ID:ENSFCAG00000022281
Aliases:None
Description:G1 to S phase transition 1 [Source:HGNC Symbol;Acc:4621]


Retrocopy-Parental alignment summary:






>retro_fcat_1913
ATGGAACTTTCAGAACCTGTTGTAGAAAATGGAGAGGTGGAAATGGTTCTAGAAGAATCATGGGAGCACAATAAAGAAGT
AAGTGAAGCTGAGCCAGGGGGTAGTTCCTTGGGAGATTCAGGGCCCCCAGAAGAGAGTGGCCAAGAAATGATGGAGAAAG
AGGAAGTGAGAAAATCTAAATCTGTGGTTATGCCCTCAGGTGCTCCTAAAAAAGAACACGTAAATGTGGTATTCATTGGG
CATGTAGATGCTGGAAAGTCAACCATTGGAGGACAAATTATGTTTTTGACAGGAATGGTTGACAAAAGGACACTTGAGAA
ATATGAGAGAGAAGCTAAAGAAAAAAACAGAGAAACTTGGTATTTGTCCTGGGCCTTAGATACAAATCAGGAAGAACGAG
ACAAGGGTAAAACAGTAGAAGTGGGTCGTGCCTATTTTGAAACAGAAAAGAAACATTTCACCATTTTAGATGCTCCTGGC
CACAAGAGTTTTGTCCCAAATATGATTGGTGGTGCTTCTCAAGCTGATTTGGCTGTACTGGTAATCTCTGCCAGGAAAGG
AGAATTTGAAACTGGATTTGAGAAAGGTGGACAGACAAGAGAACATGCGATGTTGGCAAAAACAGCAGGGGTAAAACATT
TAGTAGTGCTTATCAATAAGATGGATGATCCCACAGTAAATTGGAGCAGTGAGAGGTACGAAGAATGTAAAGAAAAACTG
GTGCCCTTTTTGAAAAAAGTCGGCTTTAGTCCCAAAAAGGACATTCACTTTATGCCCTGCTCAGGGCTGACTGGGGCAAA
TATTAAAGAGCAATCAGATTTTTGCCCTTGGTACACTGGATTACCATTTATTCCATATTTGGATAATATGCCAAACTTCA
ACAGATCAATTGATGGACCAATTAGACTGCCAATTGTGGATAAGTACAAGGATATGGGTACTGTGGTCCTGGGAAAGCTG
GAATCAGGATCCATTTTTAAAGGCCAGCAGCTTGTGATGATGCCGAACAAGCACAATGTGGAAGTTCTTGGAATTCTTTC
TGATGATGCTGAAACTGATTATGTAGCCCCAGGTGAAAACCTTAAAATCAGACTGAAGGGAATTGAAGAAGAAGAGATTC
TTCCTGGATTCATACTTTGTGACCCTAATAATCTGTGCCATTCTGGACGCACATTTGATGTTCAGATAGTGATTATTGAG
CACAAGTCTATCATCTGCCCAGGCTATAATGCGGTGCTGCACATTCATACTTGTATTGAGGAAGTTGAGATAACAGCCTT
AATCTCCTTGGTAGACAAAAAATCAGGAGAGAAAAGTAAGACACGACCCCGCTTTGTGAAACAAGATCAAGTGTGCATTG
CCCGTTTAAGGACAGCAGGAACTATCTGCCTCGAAACATTCAAGGATTTTCCTCAGATGGGTCGTTTTACTTTAAGAGAT
GAGGGTAAGACCATTGCGATTGGAAAAGTTCTGAAACTGGTCCCAGAGAAGGAC

ORF - retro_fcat_1913 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.19 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMELSEPVVENGETEMSPEESWEHKEEISDAEPGGGSLGDGRPPEESAQEMMEEEEEIPKPKSVVAPPGAP
MELSEPVVENGE.EM..EESWEH..E.S.AEPGG.SLGD..PPEES.QEMME.EE...K.KSVV.P.GAP
RetrocopyMELSEPVVENGEVEMVLEESWEHNKEVSEAEPGGSSLGDSGPPEESGQEMMEKEE-VRKSKSVVMPSGAP
ParentalKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTV
KKEHVNVVFIGHVDAGKSTIGGQIM.LTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTV
RetrocopyKKEHVNVVFIGHVDAGKSTIGGQIMFLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTV
ParentalEVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA
EVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA
RetrocopyEVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA
ParentalGVKHLIVLINKMDDPTVNWSSERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSDFCPWYT
GVKHL.VLINKMDDPTVNWSSERYEECKEKLVPFLKKVGF.PKKDIHFMPCSGLTGAN.KEQSDFCPWYT
RetrocopyGVKHLVVLINKMDDPTVNWSSERYEECKEKLVPFLKKVGFSPKKDIHFMPCSGLTGANIKEQSDFCPWYT
ParentalGLPFIPYLDNLPNFNRSVDGPIRLPIVDKYKDMGTVVLGKLESGSICKGQQLVMMPNKHNVEVLGILSDD
GLPFIPYLDN.PNFNRS.DGPIRLPIVDKYKDMGTVVLGKLESGSI.KGQQLVMMPNKHNVEVLGILSDD
RetrocopyGLPFIPYLDNMPNFNRSIDGPIRLPIVDKYKDMGTVVLGKLESGSIFKGQQLVMMPNKHNVEVLGILSDD
ParentalVETDSVAPGENLKIRLKGIEEEEILPGFILCDPNNLCHSGRTFDAQIVIIEHKSIICPGYNAVLHIHTCI
.ETD.VAPGENLKIRLKGIEEEEILPGFILCDPNNLCHSGRTFD.QIVIIEHKSIICPGYNAVLHIHTCI
RetrocopyAETDYVAPGENLKIRLKGIEEEEILPGFILCDPNNLCHSGRTFDVQIVIIEHKSIICPGYNAVLHIHTCI
ParentalEEVEITALICLVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGK
EEVEITALI.LVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGK
RetrocopyEEVEITALISLVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGK
ParentalVLKLVPEKD
VLKLVPEKD
RetrocopyVLKLVPEKD

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 11 .59 RPM 101 .00 RPM
SRP017611_kidney 15 .05 RPM 120 .37 RPM
SRP017611_liver 9 .10 RPM 77 .64 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_1913 retrocopy.

TSS - click to see more details

Felis catus was not studied using FANTOM5 data.

Lab - click to see more details

retro_fcat_1913 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 25 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000095891 retrocopy
retro_amel_4,
Bos taurus ENSBTAG000000035772 retrocopies
retro_btau_1793, retro_btau_1840,
Canis familiaris ENSCAFG000000188561 retrocopy
retro_cfam_2072,
Callithrix jacchus ENSCJAG000000181911 retrocopy
retro_cjac_618,
Cavia porcellus ENSCPOG000000093811 retrocopy
retro_cpor_73,
Equus caballus ENSECAG000000211951 retrocopy
retro_ecab_739,
Echinops telfairi ENSETEG000000182491 retrocopy
retro_etel_1626,
Felis catus ENSFCAG00000022281 1 retrocopy
retro_fcat_1913 ,
Gorilla gorilla ENSGGOG000000040711 retrocopy
retro_ggor_2906,
Microcebus murinus ENSMICG000000141371 retrocopy
retro_mmur_28,
Myotis lucifugus ENSMLUG000000007921 retrocopy
retro_mluc_98,
Macaca mulatta ENSMMUG000000231781 retrocopy
retro_mmul_118,
Monodelphis domestica ENSMODG000000047281 retrocopy
retro_mdom_1420,
Mustela putorius furoENSMPUG000000145041 retrocopy
retro_mputfur_147,
Mus musculus ENSMUSG000000622031 retrocopy
retro_mmus_238,
Nomascus leucogenys ENSNLEG000000101991 retrocopy
retro_nleu_2705,
Oryctolagus cuniculus ENSOCUG000000047591 retrocopy
retro_ocun_1664,
Otolemur garnettii ENSOGAG000000070831 retrocopy
retro_ogar_100,
Pteropus vampyrus ENSPVAG000000050091 retrocopy
retro_pvam_1426,
Rattus norvegicus ENSRNOG000000023351 retrocopy
retro_rnor_2931,
Sarcophilus harrisii ENSSHAG000000059081 retrocopy
retro_shar_14,
Ictidomys tridecemlineatus ENSSTOG000000154061 retrocopy
retro_itri_109,
Tupaia belangeri ENSTBEG000000088732 retrocopies
retro_tbel_3810, retro_tbel_4659,
Tarsius syrichta ENSTSYG000000138122 retrocopies
retro_tsyr_1169, retro_tsyr_148,
Tursiops truncatus ENSTTRG000000116301 retrocopy
retro_ttru_12,


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