RetrogeneDB ID:

retro_fcat_83

Retrocopy
location
Organism:Cat (Felis catus)
Coordinates:X:47915905..47917777(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSFCAG00000014297
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:UBQLN1
Ensembl ID:ENSFCAG00000015049
Aliases:None
Description:ubiquilin 1 [Source:HGNC Symbol;Acc:12508]


Retrocopy-Parental alignment summary:






>retro_fcat_83
ATGGCTGAGAACGGCGAGAGTAGCGGCCCCCCGCGCCCCTCCCGCGGCCCTGCTGCAGCCCAAGGCCCTGCCTCTGCCCC
GGCCGAGCCAAAAATCATCAAAGTCACTGTGAAGACCCCCAAAGAGAAAGAGGAGTTCGCGGTGCCCGAGAATAGCTCAG
TCCAGCAGTTTAAGGAAGCTATTTCGAAACGCTTCAAATCCCAAACCGATCAGCTAGTGTTGATTTTTGCCGGAAAAATC
TTAAAAGATCAAGATACCTTGATCCAACATGGCATCCATGATGGACTGACTGTTCATCTTGTAATTAAAAGCCAGAACCG
ACCTCAGGGCCAGTCCACACAGCCTAGTAATGCCGCGGGAACTAACACTACCTCCGCGTCGACTCCCAGGAGTAACTCCA
CATCTATTTCCACAAATAGTAACCCGTTTGGGCTGGGGAGCCTGGGAGGACTTGCAGGCCTTAGCAGCCTGGGCTTGAGC
TCGACCAACTTCTCTGAGCTCCAGAACCAGATGCAGCAGCAGCTCCTGTCCAGCCCTGAGATGATGATCCAAATCATGGA
AAATCCCTTTGTTCAGAGCATGCTTTCAAATCCTGATCTGATGAGGCAGCTCATAATGGCCAATCCACAGATGCAGCAGT
TGATTCAGAGAAACCCAGAAATCAGTCACCTGCTCAACAACCCAGATATAATGAGGCAGACCCTTGAAATTGCCAGGAAT
CCAGCCATGATGCAAGAGATGATGAGAAATCAAGACCTGGCTCTCAGCAATCTTGAAAGCATCCCAGGTGGCTACAATGC
TCTACGACGCATGTACACTGACATTCAAGAACCCATGCTGAATGCTGCACAAGAGCAGTTTGGAGGTAATCCGTTTGCCT
CGGTGGGGAGCAGTTCTTCCTCCGGGGAAGGTACACAGCCTTCCCGCACAGAAAATAGAGATCCACTACCCAATCCATGG
GCGCCACCACCAGCTACCCAGAGTTCTGCGACCACCAGCACAACCACAAGCAGTGGCAGTGGGTCTGGCAGTAGCTCCAA
CAGTGCTACTGGGAACACTGTGGCTGCAGCCAACTATGTCGCCAGCATCTTCAGTACCCCAGGAATGCAGAGCTTGCTAC
AACAGATAACTGAAAATCCCCAACTGATCCAGAATATGCTGTCTGCACCCTACATGAGAAGCATGATGCAGTCGCTGAGC
CAGAATCCAGATTTGGCTGCACAGATGATGCTGAATAGCCCAGTGTTTACTGCAAATCCTCAGTTGCAGGAGCAAATGCG
TCCACAGCTCCCAGCTTTCCTGCAGCAGATGCAGAATCCAGATACACTGTCAGCCATGTCAAACCCAAGAGCAATGCAGG
CTTTAATGCAGATCCAGCAGGGGCTACAGACATTAGCCACTGAAGCTCCTGGCCTCATTCCAAGCTTCACTCCAGGTGTG
GGGGTAGGGGTGCTGGGAACCGCTATAGGCCCTGTAGGCCCAGTCACACCCATAGGCCCCATAGGTCCCATAGTCCCATT
TACCCCTATAGGCCCCATTGGGCCCATAGGACCCACTGGCCCTGCAGGCCCTGGCTCCACTGGCTCTGGTGGCCCCCCTG
GGCCCACTGTGTCTAGCTCTACACCCAATGAAACCACTAGCCCAACATCAGAATCTGGACCCAACCAGCAGTTCATTCAG
CAAATGGTGCAGGCTCTGGCTGGGGCAAATCCTCCACAGCTACCAAATCCAGAAGTCAGATTTCAGCAACAACTGGAACA
GCTCAACGCAATGGGGTTCTTAAACCGTGAGGCAAACTTGCAGGCTCTAATAGCAACAGGAGGCGACATCAATGCAGCTA
TTGAGAGGCTGCTGGGCTCACAGCCATCGTAA

ORF - retro_fcat_83 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.89 %
Parental protein coverage: 85.08 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMAESGESGGPPSSQDSAAAAEGAGAPAAAASAEPKIMKVTVKTPKEKEEFAVPENSSVQQFKEEISKRFK
MAE.GES.GPP......AAA.G.....A.A.AEPKI.KVTVKTPKEKEEFAVPENSSVQQFKE.ISKRFK
RetrocopyMAENGESSGPPRPSRGPAAAQGP----ASAPAEPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFK
ParentalSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQNRPQDHSAQQTNTSGSNVTTSSAPTTNSTSG
S.TDQLVLIFAGKILKDQDTL.QHGIHDGLTVHLVIK.QNRPQ..S.Q..N..G.N.T..S.P..NSTS.
RetrocopySQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKSQNRPQGQSTQPSNAAGTNTTSASTPRSNSTSI
ParentalSATSNPFGLGGLGGLAGLSSLGLNTTNFSELQSQMQRQLMSNPEMMVQIMENPFVQSMLSNPDLMRQLIM
S..SNPFGLG.LGGLAGLSSLGL..TNFSELQ.QMQ.QL.S.PEMM.QIMENPFVQSMLSNPDLMRQLIM
RetrocopySTNSNPFGLGSLGGLAGLSSLGLSSTNFSELQNQMQQQLLSSPEMMIQIMENPFVQSMLSNPDLMRQLIM
ParentalANPQMQQLIQRNPEISHMLNNPDIMRQTLELARNPAMMQEMMRNQDRALSNLESIPGGYNALRRMYTDIQ
ANPQMQQLIQRNPEISH.LNNPDIMRQTLE.ARNPAMMQEMMRNQD.ALSNLESIPGGYNALRRMYTDIQ
RetrocopyANPQMQQLIQRNPEISHLLNNPDIMRQTLEIARNPAMMQEMMRNQDLALSNLESIPGGYNALRRMYTDIQ
ParentalEPMLSAAQEQFGGNPFASLVSNTSSGEGSQPSRTENRDPLPNPWAPQASQSSSASSGTNSAVGGTGSSAA
EPML.AAQEQFGGNPFAS..S..SSGEG.QPSRTENRDPLPNPWAP.....SSA...T....G....S..
RetrocopyEPMLNAAQEQFGGNPFASVGSSSSSGEGTQPSRTENRDPLPNPWAPPPATQSSATTSTTTSSG----SGS
ParentalGGTAGQSSSAPNLGPGVGASMFNTPGMQSLLQQITENPQLMQNMLSAPYMRSMMQSLSQNPDLAAQMMLN
G.................AS.F.TPGMQSLLQQITENPQL.QNMLSAPYMRSMMQSLSQNPDLAAQMMLN
RetrocopyGSSSNSATGNTVAAANYVASIFSTPGMQSLLQQITENPQLIQNMLSAPYMRSMMQSLSQNPDLAAQMMLN
ParentalNPLFAGNPQLQEQMRQQLPTFLQQMQNPDTLSAMSNPRAMQALLQIQQGLQTLATEAPGLIPGFTPGLGA
.P.F..NPQLQEQMR.QLP.FLQQMQNPDTLSAMSNPRAMQAL.QIQQGLQTLATEAPGLIP.FTPG.G.
RetrocopySPVFTANPQLQEQMRPQLPAFLQQMQNPDTLSAMSNPRAMQALMQIQQGLQTLATEAPGLIPSFTPGVG-
ParentalLGSTGGSSGSSG
.G..G...G..G
RetrocopyVGVLGTAIGPVG

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 87 .11 RPM 172 .73 RPM
SRP017611_kidney 33 .08 RPM 59 .67 RPM
SRP017611_liver 17 .69 RPM 99 .07 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_83 retrocopy.

TSS - click to see more details

Felis catus was not studied using FANTOM5 data.

Lab - click to see more details

retro_fcat_83 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 20 parental genes, and 23 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000148272 retrocopies
retro_btau_1087, retro_btau_188,
Canis familiaris ENSCAFG000000014351 retrocopy
retro_cfam_236,
Callithrix jacchus ENSCJAG000000036092 retrocopies
retro_cjac_3977, retro_cjac_4067,
Cavia porcellus ENSCPOG000000048491 retrocopy
retro_cpor_113,
Dasypus novemcinctus ENSDNOG000000126871 retrocopy
retro_dnov_14,
Dipodomys ordii ENSDORG000000152661 retrocopy
retro_dord_680,
Equus caballus ENSECAG000000191101 retrocopy
retro_ecab_1063,
Echinops telfairi ENSETEG000000028221 retrocopy
retro_etel_39,
Felis catus ENSFCAG00000015049 1 retrocopy
retro_fcat_83 ,
Homo sapiens ENSG000001350181 retrocopy
retro_hsap_58,
Myotis lucifugus ENSMLUG000000020362 retrocopies
retro_mluc_1774, retro_mluc_33,
Mustela putorius furoENSMPUG000000020281 retrocopy
retro_mputfur_55,
Mus musculus ENSMUSG000000053121 retrocopy
retro_mmus_83,
Nomascus leucogenys ENSNLEG000000033061 retrocopy
retro_nleu_31,
Otolemur garnettii ENSOGAG000000129471 retrocopy
retro_ogar_276,
Pongo abelii ENSPPYG000000193231 retrocopy
retro_pabe_87,
Pan troglodytes ENSPTRG000000210551 retrocopy
retro_ptro_93,
Rattus norvegicus ENSRNOG000000192821 retrocopy
retro_rnor_339,
Ictidomys tridecemlineatus ENSSTOG000000134621 retrocopy
retro_itri_157,
Tursiops truncatus ENSTTRG000000046961 retrocopy
retro_ttru_1475,


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