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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaacagtaagcaagtagattactatatttagtatttaaatcattttttattcatcctttttggcttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG

Basic information

species Zea mays
transcript GRMZM2G143651_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G143651_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g57180.1 (Oryza sativa), 3'ss of exon 4
------------------------gtgaaacagtaagcaagtagattactatatttagtatttaaatcattttttattcatcct--ttttggcttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG
                         | | | ||||   ||||   | |||   |||    |||   |    ||||||  || ||  ||||  ||  ||||||||||| || ||||||||| |||| |||||||| ||||||||||||||||| |||||||| || |||||||| |||||||| ||||
gtactgtatttttgtagttcacaaattaca-agtagtgaagtcattaactcatttttcctttttttttcccttttatgtattctacttttttctcttggcagATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211398059|gb|FL169341.1|FL169341
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211398065|gb|FL169347.1|FL169347
EST:     GTTGTGAGGATTCTCCTCGCCACSTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATA
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATA
EST: gi|29947686|gb|CB816784.1|CB816784
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211395443|gb|FL169333.1|FL169333
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211398057|gb|FL169339.1|FL169339
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAAGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|8367566|gb|BE050511.1|BE050511
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAA
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAA
EST: gi|211392815|gb|FL169318.1|FL169318
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|22545624|gb|BU097983.1|BU097983
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149064147|gb|EE286443.2|EE286443
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGAT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGAT
EST: gi|67037324|gb|CO464172.1|CO464172
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|31348826|gb|CD433183.1|CD433183
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAGTACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149074514|gb|EE162909.2|EE162909
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211398061|gb|FL169343.1|FL169343
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|148939122|gb|EC883548.2|EC883548
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211390183|gb|FL169301.1|FL169301
EST:     TTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCCAG                         ATTGTGCCCATGAAGTACCATCCGAGAGA
genomic: TTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTC-AGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGA
EST: gi|211398056|gb|FL169338.1|FL169338
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCA-TTAAGGCNTGT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGC-TGT
EST: gi|20802704|gb|BQ293754.1|BQ293754
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149086938|gb|EE176480.2|EE176480
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|30087963|gb|CB886168.1|CB886168
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|78087119|gb|DV515512.1|DV515512
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|67015444|gb|CO444193.1|CO444193
EST:     GTTGTGAGGATTCTCCTCGCC-CCTGAAGA-TATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|148977668|gb|EE026094.2|EE026094
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|21809651|gb|BQ667969.1|BQ667969
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTACGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|148963040|gb|EE013991.2|EE013991
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|31350209|gb|CD434566.1|CD434566
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAGTACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|148931470|gb|EC874468.2|EC874468
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211398062|gb|FL169344.1|FL169344
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGKGCCCATGAAGTACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|50322405|gb|CO517531.1|CO517531
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211398070|gb|FL169352.1|FL169352
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAN                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTA
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTA
EST: gi|149096347|gb|EE182072.2|EE182072
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149069994|gb|EE158394.2|EE158394
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211392819|gb|FL169322.1|FL169322
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCC-ATGAA
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAA
EST: gi|31354660|gb|CD439017.1|CD439017
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAGTACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149077783|gb|EE166504.2|EE166504
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|31664374|gb|CD573099.1|CD573099
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211398060|gb|FL169342.1|FL169342
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCA-TTNAAGGCTGT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATT-AAGGCTGT
EST: gi|31911131|gb|CD651773.1|CD651773
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|30031665|gb|CB833516.1|CB833516
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|31348834|gb|CD433191.1|CD433191
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAGTACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149069952|gb|EE158352.2|EE158352
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211395446|gb|FL169336.1|FL169336
EST:     TTGTGATKNATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGAT
genomic: TTGTGAGG-ATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGAT
EST: gi|31358221|gb|CD442578.1|CD442578
EST:     GGTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAGTACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|9794698|gb|BE553006.1|BE553006
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211390188|gb|FL169306.1|FL169306
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGNATTCA-TTAAGGCTGT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTG-ATTCAATTAAGGCTGT
EST: gi|211022386|gb|FL169353.1|FL169353
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|32805463|gb|CD957697.1|CD957697
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAGTACCATCCGAGAGATGTTGATTCAATTA
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTA
EST: gi|60352887|gb|DN219860.1|DN219860
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211523598|gb|FL477917.1|FL477917
EST:     TGTGGAGGATTCTCCTCGCCACCTGAAGGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: TGT-GAGGATTCTCCTCGCCACCTGAA-GATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211398066|gb|FL169348.1|FL169348
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211390184|gb|FL169302.1|FL169302
EST:     GTTGTGAGGATTCTCCTCGTCACCTGAAGATTATGGGTGACTTGGGTCAN                         ATTGTGCCCATGAAGTACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149013853|gb|EE043334.2|EE043334
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149106264|gb|EE291962.2|EE291962
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211398069|gb|FL169351.1|FL169351
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATG
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATG
EST: gi|71773401|gb|DR971305.1|DR971305
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211395438|gb|FL169328.1|FL169328
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTTAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|71445608|gb|DR826658.1|DR826658
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211392806|gb|FL169309.1|FL169309
EST:     GTTGTGAGGATTCTCCTCGCCACTTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTGGAT-CAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|29577180|gb|CB617292.1|CB617292
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|149055287|gb|EE156221.2|EE156221
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211395436|gb|FL169326.1|FL169326
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCAT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCAT
EST: gi|31612343|gb|CD568965.1|CD568965
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
EST: gi|211022388|gb|FL169355.1|FL169355
EST:     GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAG                         ATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT
genomic: GTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 319

CCAAGATGGGGTCTCAAGTGCTTGTCCCATTCAGAGGTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 403

CCAAGATGGGGTCTCAAGTGCTTGTCCCATTCAGAGGTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 266

CCAAGATGGGGTCTCAAGTGCTTGTCCCATTCAGAGGTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 507

CCAAGATGGGGTCTCAAGTGCTTGTCCCATTCAGAGGTTGTGAGGATTCTCCTCGCCACCTGAAGATTATGGGTGACTTGGGTCAGgtgaaacagt ... cttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactatatttagtatttaaatcattttttattcatcctttttggcttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG
                                   tcctttttggcttct  CT-rich tract
     atatttagtatttaaa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaaacagtaagcaagtagattactatatttagtatttaaatcattttttattcatcctttttggcttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT