Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggatatttccccactttaccatatgctgatgaccatactgtttttcttttgtgtaaaacatatcaattcactgatcttattgtgtgtggtcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG

Basic information

species Zea mays
transcript GRMZM2G078839_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G078839_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g12260.1 (Oryza sativa), 3'ss of exon 2
tggatatttccccactttaccatatgctgatgaccatactgtttttcttttgt--gtaaaacatatcaattcactgatcttattgtgtgtggtcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG
 | | ||| |  ||    |  ||  |  |   || ||  ||   |           |  || |  | | ||| ||||| | |||  ||    | || || ||||| ||||| | |||||||||||||||| || || |||| || |||||||| |||||||| |  |    |||||||||| ||||| ||||||||||||||
-gcacatt-catcatggaattattcgtggtaaactatgatgccataaagaaagcattgcaaaaggttagttctctgatttcattaagttgcattttgtgtagTGAATACTCAAAGCAGCTCAATGCTTCCCGACTTGAAGTTCTGCAAGCTCAAGATGATTTAGCGATGTCTATGTTGGAGGCAGCAGGGAAAGAGCTACTG

upper sequence: GRMZM2G078839_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G37160.1 (Glycine max), 3'ss of exon 2
----------tggatatttccccactttaccatatgctgatgaccatactgtttttcttttgtgtaaaacatatcaattcactgatcttattgtgtgtggtcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG
          |    | |      || | |  ||   ||   |  | | ||   ||        | | | |  | ||||   |  |   |   |   | || |  |||||||| |||||||||||||| ||||||||  | || ||||| ||||||||||| |||||  || | |     |||   ||  | |||   || || ||  ||
tcatgtgaagtatggagtgttgtgctgtgctctaaagtggcaaaaacagtgccatt--------tgagatagtttaattt--ttgtggcacaattaattgtttgttgcagTGAGTACTCGATGCAGCTGAATGCTTCTCGGATCAAAGTTCTTCAAGCTCAAGATGACGTGATCAGTTCCATGAAAGAAGCTGCATCCAAGGAACTGTTG

upper sequence: GRMZM2G078839_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G37150.1 (Glycine max), 3'ss of exon 2
tggatatttccccactttaccatatgctgatgaccatactgtttttcttt-tgtgtaaaaca-tatcaattcac-tgatcttattgtgtgtg-------gtcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG
             |   |   | |||| ||  |   |  | |  |||    ||   ||| || |   | || |  |  | | |||| |           || |  |||||||| |||||||||||||| ||||||||  | |||||||| ||||||||||| |||||  || | |     |||   ||  | |||   || || ||  ||
----------taaatcatgtgaaatgcagagcattgtgttatgcttcaaagtggaaaaagcagtgctagttgagatagtttaattgggcacaattaattgtttgttgcagTGAGTACTCGATGCAGCTAAATGCTTCTCGGATTAAAGTTCTTCAAGCTCAAGATGACGTGATCAGTTCCATGAAAGAAGCTGCATCCAAGGAACTGTTG

upper sequence: GRMZM2G078839_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G37190.1 (Glycine max), 3'ss of exon 2
tggatatttccccactttaccatatgctgatgaccatactgtttttcttttgtgtaaa-acatatc-aattca---ctgatcttattgtgtgtggtcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG
    ||||||   | | |   |||  |||       |  ||||||| |    || ||| |||   | | || |    |  |   |       | || |  |||||||| ||||| |||||||| ||||||||  | |||||||| ||||||||||| |||||  || | |     |||   ||  | |||   || || ||  ||
----tatttcat-aatgtgaaatacactgtattgttttgtgtttttataagctgcaaacacagggctagtttaagttttgtggcacaactaattgtttgttgcagTGAGTACTCAATGCAGCTGAATGCTTCTCGGATTAAAGTTCTTCAAGCTCAAGATGACGTGATCAGTTCCATGAAAGAAGCTGCATCCAAGGAACTTTTG

upper sequence: GRMZM2G078839_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G02420.1 (Glycine max), 3'ss of exon 2
tggatatttccccactttaccatatgctgatgaccatactgtttttctt--ttgtgtaaaacatatcaattcactgatcttattgtgtgtgg------------tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG
                 |   | ||   |||     | |||| || |    | |   |||   |  || || |   |  ||| | | |||||            | |  |||||||| ||||| |||||||| ||||||||  | || ||||| ||||||||||| |||||  || | |     |||   ||  | |||   || || ||  ||
--------------tcatgtgaaatatggattgttgtgctgtgttccaaagtggcaaaaacagtgccagttgagatagtttaatttttgtggcacaattaattgtttgttgcagTGAGTACTCAATGCAGCTGAATGCTTCTCGGATCAAAGTTCTTCAAGCTCAAGATGACGTGATCAGTTCCATGAAAGAAGCTGCATCCAAGGAACTGTTG

upper sequence: GRMZM2G078839_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G02390.3 (Glycine max), 3'ss of exon 2
tggatatttccccactttaccatatgctgatgaccatactgtttttcttttgtgtaaaacatatcaattca---ctgatcttattgtgtgtggtcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG
   || ||    | || |  || || | |       || ||||| |    ||   | |   |   | || |    |  |   |       | || |  |||||||| ||||| |||||||| ||||||||  | |||||||| ||||||||||| |||||  || | |     |||   ||  | |||   || || ||  ||
---attttatttccctatgtcaaatacagtgtgttgtattgtttctaagctgcaaacacagtgctagtttaagttttgtggcacaactaattgtttgttgcagTGAGTACTCAATGCAGCTGAATGCTTCTCGGATTAAAGTTCTTCAAGCTCAAGATGACGTGATCAGTTCCATGAAAGAAGCTGCATCCAAGGAACTTTTG

upper sequence: GRMZM2G078839_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv02s0025g01000.t01 (Vitis vinifera), 3'ss of exon 2
tggatatttccccactttaccatatgctgatgaccatactgtttttcttttgtgtaaaacata---tcaattcac---tgatcttattgtgtgtggtcttat-gcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG
        |  |      |  ||      ||| ||| ||  ||||    ||      || |||   || | | |    |||  | | | | | | || || | ||||||| ||||| |||||||||||||| ||  | |||||||| ||||||||||| ||||| || || |     |||   ||| | |||  ||| ||||| |||
------actgtcagaagaaaaatgaatcaatg-ccacacctttttgtcattactagtaatataggatctactgaaaaatgaaatgaatttatattgttttgttgcagTGAATACTCCATGCAGCTCAATGCCTCTCGGATTAAAGTTCTTCAAGCTCAAGATGACTTAGTTAGCTCCATGAAAGAGGCTGCATCGAAGGAGCTCCTG

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|211006547|gb|FL418094.1|FL418094
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAAGTCCTTCAAGCTC
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAA-GTCCTTCAAGCTC
EST: gi|211192469|gb|FL416635.1|FL416635
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGGAATTAAAGTCCTTCAAGCTC
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAG-AATTAAAGTCCTTCAAGCTC
EST: gi|33285524|gb|CF075319.1|CF075319
EST:     AGGCAGGCATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211525105|gb|FL426868.1|FL426868
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211013872|gb|FL375772.1|FL375772
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211489591|gb|FL234464.1|FL234464
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATG
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATG
EST: gi|211542090|gb|FL388056.1|FL388056
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211148550|gb|FL374618.1|FL374618
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|91051896|gb|EB162314.1|EB162314
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|31998532|gb|CD662122.1|CD662122
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|32932813|gb|CF037625.1|CF037625
EST:     GGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: GGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211317448|gb|FL406235.1|FL406235
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211390321|gb|FL404127.1|FL404127
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|149106149|gb|EE291827.2|EE291827
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211159732|gb|FL393702.1|FL393702
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|71443317|gb|DR824367.1|DR824367
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|4753442|gb|AI657352.1|AI657352
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|76016568|gb|DT943738.1|DT943738
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211514323|gb|FL422105.1|FL422105
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211054870|gb|FL422547.1|FL422547
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|33467615|gb|CF244664.1|CF244664
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211426054|gb|FL384928.1|FL384928
EST:     AGGCAGGAATATGACAGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211150053|gb|FL377210.1|FL377210
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|74234972|gb|DT642886.1|DT642886
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211433593|gb|FL370271.1|FL370271
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTC
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAG-CTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTC
EST: gi|211379384|gb|FL388773.1|FL388773
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|15426680|gb|BI542502.1|BI542502
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211305121|gb|FL392834.1|FL392834
EST:     AGGCAGGAATATGACAGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|29947123|gb|CB816493.1|CB816493
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211494451|gb|FL428217.1|FL428217
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|29947032|gb|CB816448.1|CB816448
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211082966|gb|FL420019.1|FL420019
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211518312|gb|FL387236.1|FL387236
EST:     AGGCAGGAATATGACAGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211162713|gb|FL378614.1|FL378614
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGGTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211204256|gb|FL384225.1|FL384225
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211506507|gb|FL387170.1|FL387170
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211363160|gb|FL383522.1|FL383522
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211303215|gb|FL395615.1|FL395615
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|71443402|gb|DR824452.1|DR824452
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
EST: gi|211429178|gb|FL408897.1|FL408897
EST:     AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAAT                         TGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA
genomic: AGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCA

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), 48 (downstream exon)
Score: 207

AGTTCCAAATAGAAAAGTTGCAGCTGGTGGAAGCTGAAAAGAAGAAGATCAGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 329

AGTTCCAAATAGAAAAGTTGCAGCTGGTGGAAGCTGAAAAGAAGAAGATCAGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 225

AGTTCCAAATAGAAAAGTTGCAGCTGGTGGAAGCTGAAAAGAAGAAGATCAGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 511

AGTTCCAAATAGAAAAGTTGCAGCTGGTGGAAGCTGAAAAGAAGAAGATCAGGCAGGAATATGACCGGAAAGAGAAGCAAGTTGGCATCAAGAAGAAAATgtaaatagca ... tcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttgtgtaaaacatatcaattcactgatcttattgtgtgtggtcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG
                        cactgat  putative branch site (score: 511)
         taaaacatatcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggatatttccccactttaccatatgctgatgaccatactgtttttcttttgtgtaaaacatatcaattcactgatcttattgtgtgtggtcttatgcagTGATTACTCGATGCAGCTCAATGCTTCCAGAATTAAAGTCCTTCAAGCTCAGGATGATTTGGTAACAGATATGTTGGAGTCAGCAAGGAAAGAGCTACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - -gctgatg
- - - - - - - - - - - - - - - - - catactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcactg