RetrogeneDB ID:

retro_cfam_1369

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:3:26934669..26936038(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCAFG00000008941
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:WBP11
Ensembl ID:ENSCAFG00000012926
Aliases:None
Description:WW domain binding protein 11 [Source:HGNC Symbol;Acc:16461]


Retrocopy-Parental alignment summary:






>retro_cfam_1369
ATGGGACGGAGATCTACATCATCCACCAAGAGTGGAAAATTTATGAACCCCACAGACCAAGCCCGAAAAGAAGCCCGGAA
GAGAGAATTAAAGAAGAACAAAAAACAGCGCATGATGGTACAAGCTGCAGTTTTGAAGATGAAGGATCCCAAACAGATTA
TCCGGGACATGGAGAAATTGGATGAAATGGAGTTTAACCCAGTGCAGCAACCACAGTTAAATGAGAAGGTGCTGAAAGAC
AAGCGTAAAAAGCTGCGTGAAACCTTTGAACGTATTCTACGACTCTATGAAAAAGAGAATCCAGACATTTACAAAGAATT
GAGAAAGCTAGAAGTGGAATATGAACAGAAGAGGGCTCAACTTAGCCAATATTTTGATGCTGTCAAGAATGCTCAGCATG
TGGAAGTGGAGAGTATTCCCTTGCCAGATATGCCACATGCTCCTTCCAACATCTTGATCCAGGACATTCCACTTCCTGGT
GCCCAGCCACCCTCCATCCTTAAAAAGACCTCAGCCTATGGACCTCCGACACGGGCAGTTTCTATACTTCCTCTTCTTGG
ACATGGTGTGCCACGTTTGCCCCCTGGTAGAAAACCTCCTGGTCCTCCCCCTGGTCCACCACCTCCTCAAGTCTTGCAAA
TGTATGGCCGTAAAGTGGGCTTTGCCCTAGATCTTCCCCCGCAGGCGGGATGAAGATATGTTATATAGCCCAGAACTTGC
TCAACGGGGTCATGATGATGTTTCCAGCACCAGTGAAGATGACGGATATCCTGAGGACATGGATCAAGATAAGCATGATG
ACAGTACTGATGACAGTGACACTGACAGGTCAGATGGAGAAAGTGAAGGGGATGAATTTGTGCACCGTGATGATAACGAG
AGAGACAACAATGAAGAAAAGAAGTCAGGTCTGAGTGTAAGATTTGCAGATATGCCTGGAAAATCAAGGAAGAAAAAGAA
GAACATGAAGGAGCTGACTCCTCTTCAAGCCATGATGCTTCGAATGGCAGGTCAGGAAATCCCCGAGGAAGGACGAGAAG
TAGAAGAATTTTCAGAGGATGATGACGAAGATGATTCTGATGATTCTGAAGCAGAAAAGCAATCACAGAAACAGCATAAA
GAGGAATCTCTTTCTGACGGCACATCTACTACTTCCTCACAGCAGCAAGCTCCCCCACAGTCTGTTCCTCCTTCTCAGAT
ACAAGCACCTCCCATGCCAGGACCACCTCCTCTTGGACCACCACCTGCTCCACCTTTACGGCCACCTGGACCACCTACTG
GCCTTCCTCCTGGACCACCTCCAGGAGCTCCTCCATTCCTGAGGCCCCCTGGAATGCCAGGACTCCGGGGGCCTTTACCC
CGACTTTTG

ORF - retro_cfam_1369 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.9 %
Parental protein coverage: 71.45 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMGRRSTSSTKSGKFMNPTDQARKEARKRELKKNKKQRMMVRAAVLKMKDPKQIIRDMEKLDEMEFNPVQQ
MGRRSTSSTKSGKFMNPTDQARKEARKRELKKNKKQRMMV.AAVLKMKDPKQIIRDMEKLDEMEFNPVQQ
RetrocopyMGRRSTSSTKSGKFMNPTDQARKEARKRELKKNKKQRMMVQAAVLKMKDPKQIIRDMEKLDEMEFNPVQQ
ParentalPQLNEKVLKDKRKKLRETFERILRLYEKENPDIYKELRKLEVEYEQKRAQLSQYFDAVKNAQHVEVESIP
PQLNEKVLKDKRKKLRETFERILRLYEKENPDIYKELRKLEVEYEQKRAQLSQYFDAVKNAQHVEVESIP
RetrocopyPQLNEKVLKDKRKKLRETFERILRLYEKENPDIYKELRKLEVEYEQKRAQLSQYFDAVKNAQHVEVESIP
ParentalLPDMPHAPSNILIQDIPLPGAQPPSILKKTSAYGPPTRAVSILPLLGHGVPRLPPGRKPPGPPPGPPPPQ
LPDMPHAPSNILIQDIPLPGAQPPSILKKTSAYGPPTRAVSILPLLGHGVPRLPPGRKPPGPPPGPPPPQ
RetrocopyLPDMPHAPSNILIQDIPLPGAQPPSILKKTSAYGPPTRAVSILPLLGHGVPRLPPGRKPPGPPPGPPPPQ
ParentalVLQMYGRKVGFALDLPP-RRRDEDMLYSPELAQRGHDDDVSSTSEDDGYPEDMDQDKHDDSTDDSDTDRS
VLQMYGRKVGFALDLPP.RR.DEDMLYSPELAQRGH.DDVSSTSEDDGYPEDMDQDKHDDSTDDSDTDRS
RetrocopyVLQMYGRKVGFALDLPP>RR-DEDMLYSPELAQRGH-DDVSSTSEDDGYPEDMDQDKHDDSTDDSDTDRS
ParentalDGESEGDEFVHRDDNERDNNEEKKSGLSVRFADMPGKSRKKKKNMKELTPLQAMMLRMAGQEIPEEGREV
DGESEGDEFVHRDDNERDNNEEKKSGLSVRFADMPGKSRKKKKNMKELTPLQAMMLRMAGQEIPEEGREV
RetrocopyDGESEGDEFVHRDDNERDNNEEKKSGLSVRFADMPGKSRKKKKNMKELTPLQAMMLRMAGQEIPEEGREV
ParentalEEFSEDDDEDDSDDSEAEKQSQKQHKEESLSDGTSTTSSQQQAPPQSVPPSQIQAPPMPGPPPLGPPPAP
EEFSEDDDE.......AEKQSQKQHKEESLSDGTSTTSSQQQAPPQSVPPSQIQAPPMPGPPPLGPPPAP
RetrocopyEEFSEDDDEXXXXXXXAEKQSQKQHKEESLSDGTSTTSSQQQAPPQSVPPSQIQAPPMPGPPPLGPPPAP
ParentalPLRPPGPPTGLPPGPPPGAPPFLRPPGMPGLRGPLPRLL
PLRP.................FLRPPGMPGLRGPLPRLL
RetrocopyPLRPXXXXXXXXXXXXXXXXXFLRPPGMPGLRGPLPRLL

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
SRP012049_cerebellum 2 .98 RPM 30 .70 RPM
SRP017611_brain 1 .75 RPM 27 .15 RPM
SRP017611_kidney 1 .72 RPM 21 .20 RPM
SRP017611_liver 0 .29 RPM 11 .46 RPM

ChIP-Seq - click to see more details

Canis familiaris was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_cfam_1369 retrocopy.

TSS - click to see more details

Canis familiaris was not studied using FANTOM5 data.

Lab - click to see more details

retro_cfam_1369 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_1369 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 22 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000147591 retrocopy
retro_btau_20,
Canis familiaris ENSCAFG00000012926 2 retrocopies
retro_cfam_1369 , retro_cfam_1911,
Callithrix jacchus ENSCJAG000000216111 retrocopy
retro_cjac_1737,
Homo sapiens ENSG000000844632 retrocopies
retro_hsap_1878, retro_hsap_4719,
Gorilla gorilla ENSGGOG000000044483 retrocopies
retro_ggor_1375, retro_ggor_1711, retro_ggor_2932,
Macropus eugenii ENSMEUG000000139711 retrocopy
retro_meug_1952,
Myotis lucifugus ENSMLUG000000152161 retrocopy
retro_mluc_1074,
Macaca mulatta ENSMMUG000000192991 retrocopy
retro_mmul_1329,
Monodelphis domestica ENSMODG000000179491 retrocopy
retro_mdom_143,
Mustela putorius furoENSMPUG000000116191 retrocopy
retro_mputfur_280,
Mus musculus ENSMUSG000000302161 retrocopy
retro_mmus_2740,
Nomascus leucogenys ENSNLEG000000039261 retrocopy
retro_nleu_2651,
Oryctolagus cuniculus ENSOCUG000000171771 retrocopy
retro_ocun_974,
Otolemur garnettii ENSOGAG000000105181 retrocopy
retro_ogar_207,
Ochotona princeps ENSOPRG000000150083 retrocopies
retro_opri_107, retro_opri_1159, retro_opri_678,
Pongo abelii ENSPPYG000000043233 retrocopies
retro_pabe_1558, retro_pabe_2099, retro_pabe_3663,
Pan troglodytes ENSPTRG000000047243 retrocopies
retro_ptro_1260, retro_ptro_1637, retro_ptro_3136,
Rattus norvegicus ENSRNOG000000055053 retrocopies
retro_rnor_1287, retro_rnor_2726, retro_rnor_741,
Rattus norvegicus ENSRNOG000000495931 retrocopy
retro_rnor_740,
Sorex araneus ENSSARG000000070851 retrocopy
retro_sara_753,
Sarcophilus harrisii ENSSHAG000000166491 retrocopy
retro_shar_81,
Tupaia belangeri ENSTBEG000000033941 retrocopy
retro_tbel_2213,


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