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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatggattttcctcaaactctatgaatcgcctcacaatttctgtaccatgcacatttgccttcagttaggaggttaatatgtattcttctctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA

Basic information

species Zea mays
transcript GRMZM2G133213_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133213_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g59930.1 (Oryza sativa), 3'ss of exon 4
----------------------------------------------------------------------------------------------aaatggattttcctcaaactctatgaatcgcctcacaatttc---tgtacca--tgcacatttgccttcagtt-aggaggttaatatgtattcttctctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA
                                                                                               |     | |      |  | |||  ||    | ||| |  |   || |     ||| |||||| |||  ||| | ||| |||| |||  |||||||||| | ||||| || ||||  ||||| ||||| |||||||| || ||||||||||| ||||||||||||||||| ||||| ||||| |||
gttgttttctttctgttccaagcaacttgtgttaagtctataatgggtgtttattgactctgaaagagttttgtgttatctattatgctttagccagcatttatgtgcttacatttattgattaggtgacattcacaattgaattgggtgctcatttgtctttggtttatgagtttaacatggtttcttctctgttctagGGTCGTTTCAGATACCAAGTTGGGCAAGTGAGAGCTTTTGGAATGCTAGCTGGTGGATCAGGCATCACTCCCATGTTCCAA

upper sequence: GRMZM2G133213_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA15G34620.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------aaatggattttcctcaaactcta---tgaatcgcctcacaatttctgtaccatgcacatttgccttcagttaggaggttaatatgtattcttctctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA
                                                            | |   ||| |  | ||| ||||   | ||  || |     ||||  |  | ||    | |        | | |   |  |  |||||  ||      | ||||| || ||||  ||| |   |||||| |  ||||||||||||||| | ||||| || |||||||| |||||||||||||| 
gtactaattgccgtccttaataaggcaaagtaaaggataattaaaaaaattaatcggtccacagaaattatattgaaagtctaaattaaagtgcttagt--tttcaattacttgatagtctcaaaagcataatggaatgtaagtgtatatttgcgacttgtagGGACGTTTCAGTTACAAGCCTGGCCAGGCTAGGGCATTTGGAATGATTGCTGGGGGTTCAGGCATAACTCCAATGTTTCAG

upper sequence: GRMZM2G133213_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G24510.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------aaatggattttcctcaaactctatgaatcgcctcacaatttctgtaccatgcacatttgcctt-cagtt--aggaggttaata--------tgtattcttctctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA
                                                   || |  | |  ||  |||   |||  |  | || |       ||     |    |||| | |   |||   |  ||  ||||         |||||  ||      | ||||| || ||||  ||| |   ||||||||| ||||||||||||||| | ||||| || |||||||| |||||||||||||| 
gtactaattgtcacccttaataaggcaaaataaaggatgattaaaaaaaataattatagtccccagaaaagatattgaaggtctaaattaaagtgcttagttttgatttacttgatagtctcaaaagcataatggatgtaactgtatatttgcgacttgtagGGACGTTTCACTTACAAACCTGGCCAAGTTAGGGCATTTGGAATGATTGCTGGGGGCTCAGGCATAACTCCAATGTTTCAG

upper sequence: GRMZM2G133213_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT5G17770.1 (Arabidopsis thaliana), 3'ss of exon 4
---------aaatggattttcctcaaactctatgaatcgcctcacaatttctgtaccatgcacatttgccttcagttaggaggttaatatgtattcttctctgatat-----agGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA
         |  | ||| |    |  |||  ||    | |    |||  |   ||   |  || |||   |  |  |   |  ||  | ||| || ||  |   ||      ||||  | |||||||| ||    || ||  | ||||||||||||||||| ||||| || |||||||| ||||| ||||| |||
gtacctttaagttagatgtcttgcttacttgatcttacacaa-gcaacattgttattctatac-tttttttgaatctcaaaactttttttgttttattaccctttacttgtcagGGTAGGTTCAAGTATCAACCAGGTCAGTTTAGGGCATTTGGAATGCTTGCTGGAGGTTCAGGCATCACTCCCATGTTCCAA

upper sequence: GRMZM2G133213_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv08s0056g01150.t01 (Vitis vinifera), 3'ss of exon 4
-aaatggattttcctca-aactctatgaatcgcctcacaatttctgtaccatgcacatttgccttcagttaggaggttaatatgtattcttctctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA
  |||    ||    || || |  || || |   | | || |   | |  |        |    ||| |   |  | |    |  ||  |  |   ||  |||| || |||| ||| || ||||||||||| ||||||||||| ||||| ||||| || || || ||||| |||||||| |||
ggaatatcattcatgcataattaaataaaacagtt-agaactgaagaaaaaaatgaggctcttatcaatactgttggtgtattaaatgttaattctat-cagGGGCGTTTCAGGTATCAAGTTGGCCAAGTTAGGGCATTTGGGATGCTTGCTGGAGGTTCTGGAATTACACCAATGTTCCAA

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|71448609|gb|DR829659.1|DR829659
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|148941936|gb|EC886923.2|EC886923
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|149102560|gb|EE287919.2|EE287919
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211022151|gb|FL381481.1|FL381481
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCA
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCA
EST: gi|211135585|gb|FL028679.1|FL028679
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAA-                         GTCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211135584|gb|FL028678.1|FL028678
EST:     TGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTNGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: TGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|71762916|gb|DR960853.1|DR960853
EST:     ATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|149037731|gb|EE155393.2|EE155393
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|87152328|gb|DY397117.1|DY397117
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|78109074|gb|DV527491.1|DV527491
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211135583|gb|FL028677.1|FL028677
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|148961502|gb|EE012253.2|EE012253
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211490405|gb|FL381898.1|FL381898
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACG
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACG
EST: gi|76012143|gb|DT939313.1|DT939313
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|149082026|gb|EE171198.2|EE171198
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|110942132|gb|EE162289.1|EE162289
EST:     GAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: GAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|110222928|gb|EC904826.1|EC904826
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|76291173|gb|DV030741.1|DV030741
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|60353457|gb|DN220430.1|DN220430
EST:     AGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: AGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211063699|gb|FL417020.1|FL417020
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTACYTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTA
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTA
EST: gi|78080766|gb|DV509178.1|DV509178
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211031806|gb|FL374010.1|FL374010
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGAC-TAAG                         GGCCGATTCAAGTACCACGTTGG
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGG
EST: gi|67014854|gb|CO443603.1|CO443603
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211323819|gb|FL407925.1|FL407925
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTNAAGGGACCTAAG                         GGCCGATTCAAGTACCACGT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGT
EST: gi|60395988|gb|DN228858.1|DN228858
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|149081654|gb|EE170805.2|EE170805
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|149080052|gb|EE169070.2|EE169070
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|76291174|gb|DV030742.1|DV030742
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|32856318|gb|CD995999.1|CD995999
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211231553|gb|FL371571.1|FL371571
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATTGCTGGC
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAAT-GCTGGC
EST: gi|19058065|gb|BM736732.1|BM736732
EST:     TTTCCGCGAGATG-AAGTGTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: TTTCCGCGAGATGAAAGT-TGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|7162318|gb|AW519925.1|AW519925
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|18965165|gb|BM661428.1|BM661428
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|149073961|gb|EE162290.2|EE162290
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211303371|gb|FL404506.1|FL404506
EST:     ATTTCCGCGAGATGAAAGTWGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGA
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGA
EST: gi|93017180|gb|EB642700.1|EB642700
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|50324318|gb|CO519444.1|CO519444
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACCTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211129521|gb|FL429574.1|FL429574
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATT-GGAATGCTG
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTG
EST: gi|50328082|gb|CO523208.1|CO523208
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|148958580|gb|EC904827.2|EC904827
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|93014585|gb|EB640105.1|EB640105
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|149037730|gb|EE155392.2|EE155392
EST:     AGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: AGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211532834|gb|FL377049.1|FL377049
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGG
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGG
EST: gi|149073131|gb|EE161405.2|EE161405
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|93014408|gb|EB639928.1|EB639928
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|50332760|gb|CO527886.1|CO527886
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|91051331|gb|EB161749.1|EB161749
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|149080051|gb|EE169069.2|EE169069
EST:     GTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: GTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211109351|gb|FL402581.1|FL402581
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|9733244|gb|BE511996.1|BE511996
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|211290231|gb|FL387862.1|FL387862
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGTT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|78109073|gb|DV527490.1|DV527490
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|60357354|gb|DN224327.1|DN224327
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|78117350|gb|DV535737.1|DV535737
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|18965111|gb|BM661399.1|BM661399
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
EST: gi|6056550|gb|AW090940.1|AW090940
EST:     ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAG                         GGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT
genomic: ATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCT

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: 49 (upstream exon), 49 (downstream exon)
Score: 335

ATGTATCCCCAAGGGAGAATGTCCCATCATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 712

ATGTATCCCCAAGGGAGAATGTCCCATCATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 725

ATGTATCCCCAAGGGAGAATGTCCCATCATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 753

ATGTATCCCCAAGGGAGAATGTCCCATCATTTCCGCGAGATGAAAGTTGGTGATTATTTGTCTGTGAAGGGACCTAAGgtgatcatca ... tctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accatgcacatttgccttcagttaggaggttaatatgtattcttctctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA
                                            ctctgat  putative branch site (score: 753)
                                     tattcttctct  CT-rich tract
                             ttaatatgtattctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaatggattttcctcaaactctatgaatcgcctcacaatttctgtaccatgcacatttgccttcagttaggaggttaatatgtattcttctctgatatagGGCCGATTCAAGTACCACGTTGGCCAAGTGAGGGCATTTGGAATGCTGGCTGGTGGATCAGGCATTACTCCAATGTTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - cctcaca
- - - - - - - - - - - - - - - - - - - - - - - ccatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atatgta