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

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttcttaatcctgatatggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG

Basic information

species Oryza sativa
transcript LOC_Os01g46980.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G070360_T01 (Zea mays), 3'ss of exon 4
-tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttcttaatcctgatatggatcctgctgtt-tatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
 ||   |||  ||||  |  || ||||          |  || |    || |||| ||      || |   |||| ||| |||| |  || ||||||| ||||||||||||| ||||  ||||||||||||||||||||||||||| |||||  |||||||| ||||| ||||||||||| |||||||||||||| || |||
attctgaat--atagtctgtttccaatagtttgtggctagcttttcaactcaatcttggccataattccaatgttatattctaaaagtatctgtttattcagCTCTGGAGGTATTGTCTTGGCTTCTCGAGATGGAAAGATTGTGTTTGAGAGTACACTTGACGCCAGACTGGAAGTTGTTTTCCGCAAGAAATTGCCAGAG

upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G030167_T01 (Zea mays), 3'ss of exon 4
tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttcttaatcctgat-atggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
 ||  ||  || ||  |  || ||||  ||      |  || |    || |||| ||   || | |||     | ||| |||| |  || ||||| | ||||||||||||| ||||  ||||||||||||||||||||||||||| |||||  |||||||| || || || |||||||| |||||||||||||| || |||
-tttgaacacagagtctatttccaatagcatgtggctagcttttcaactcaatcttggccatagttccaatgttctattctaaaagtatctgtttgttcagCTCTGGAGGTATTGTATTGGCTTCTCGAGATGGAAAGATTGTGTTTGAGAGTACACTTGACGCAAGACTAGAAGTTGTTTTCCGCAAGAAATTGCCAGAG

upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA08G02390.2 (Glycine max), 3'ss of exon 4
---tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttcttaatcctgatatggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
   ||| |||||   || ||   |  |||   | ||  |||      | | | |   |  || |   |  |        || |  | |  |||   ||| ||||||||| || || ||| |||||||||| |||||||||||||||||||| || |||||||||||  | || || || || ||||| || ||  | || |||
cagtttcaaatcttgagatt-aataaaatcatattagcttt-taactgctttgatatcaaatttcagttgtagcacacctgatt-ttttttgttgatattcagCTCTGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGTGAAAATACACTTGATGCACGTCTTGATGTAGTTTTCCGTAAAAAGCTTCCAGAG

upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA05G37150.1 (Glycine max), 3'ss of exon 4
tttgaaatccat---agcttcgtttcaatttca-at--acttttactgtagttcttaatcctgatatggatc-ctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
|||| | |  ||   || | | |   ||  ||| ||   |||||  | |  |  ||||   | |  || | | |  ||| ||||  ||||  |       ||| ||||||||| || || ||| |||||||||| ||||||||||||||||| || || || ||||||||  | || || || || ||||| || ||  | || |||
tttgtagttgattgaagatacttcctaaaatcatattagcttttttttttatatttaaatttcagttgtagcacaactgattattttaattga-------tattcagCTCTGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGCGAAAATACTCTTGATGCACGACTTGATGTAGTGTTCCGTAAAAAGCTTCCAGAG

upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA05G37190.1 (Glycine max), 3'ss of exon 4
------tttgaaatccatagcttcgtttcaatttcaata-ctttta-ctgtagttcttaatcctgatatggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
      | |||        |||||  |  |||   | || |||||| |||   |    |||     |    |  |  ||| ||||  |       |||   ||| |||||| || || || ||| |||||||||| |||||||||||||||||||| || || ||||||||  | || || || || ||||| || ||  | || |||
gattaatctgattgaggatgcttc-ctaaaatcatattagcttttagctgctttgtcaaatttcagttgtaacacacctgattatttt-------tgttgatattcagCTCCGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGTGAAAATACTCTTGATGCACGTCTTGATGTAGTTTTCCGTAAAAAGCTTCCAGAG

upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA05G37160.1 (Glycine max), 3'ss of exon 4
-tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttctta-atcctgatatggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
  ||||     |  |||||  |  |||   | ||   ||   |  | | | | ||    || |   |  |   |    || | || | |  || | ||  |||||||| || || ||| |||||||||| |||||||||||||||||||| || || ||||||||  | || || || || ||||| || ||  | || |||
agttgattgagaatgcttc-ctaaaatcatattaggcttttagctgctttgatatttaaatttcagttatagcgcacctgattattttaattgat-atttagCTCTGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGTGAAAATACTCTTGATGCACGACTTGATGTAGTGTTCCGTAAAAAGCTTCCAGAG

upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA08G02420.1 (Glycine max), 3'ss of exon 4
--tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttcttaatcctgatatggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
   ||||     |  |||||  |  ||||  | ||  | |    |  ||    ||    || |   |  |        || |  | | |  || | || ||||||||| || || ||| |||||||||| |||||||||||||||||||| || || ||||||||  | || || || || ||||| || ||  | || |||
tagttgattgagaatgcttc-ctaaaattatattagatattagctgctttgatatttaaatttcagttgtagcacacctgattcttttaattgat-attcagCTCTGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGTGAAAATACTCTTGATGCACGACTTGATGTAGTGTTCCGTAAAAAGCTTCCAGAG

upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT4G11150.1 (Arabidopsis thaliana), 3'ss of exon 4
-------tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttcttaatcctgatatggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
       ||     | |  | | |   || |  || || | |||||    ||  | | |||    | | ||||| | |   ||   || | | |    | ||   |||||||||||||||||| | |||||||| ||||| || || ||||| |||||||||||||||||  | || || || |  ||||| | |||| | || | |
gtaaaatttcatgtttctcatcattactttacatttaa-atttttataaaagaacattatcagtgtttagatccggtttgatagtgtattttga-acatgta-atagCTCTGGAGGTGTTGTGTTAGCTTCTCGTGATGGGAAAATCGTGTGCGAGAACACACTTGATGCGCGTCTTGATGTGGCATTCCGTATGAAACTCCCAGTG

upper sequence: LOC_Os01g46980.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv02s0025g01000.t01 (Vitis vinifera), 3'ss of exon 4
tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttcttaatcctgatatggatcctgctgtttatgctaatataatgtgttta---tgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
| ||       | |       | |||   || | || ||    || | ||  |      || |     |         || |||| |  | || |   | ||||||||||||||| ||| |||||||||||||||| || ||||| ||||||||||| |||||||| ||  |||| ||||| ||||| || ||| | || |||
tgtggggctgtttgtgggaaataaat---aacatttgtaaaacagcttttgttgaaagaatagtgatggaaaagccctctgatattagcttttcactgtccagCTCTGGAGGTGTGGTGTTGGCTTCTCGAGATGGGAAAATTGTATGTGAGAACACCCTTGATGCAAGATTGGATGTTGTATTCCGTAAAAAACTTCCAGAG

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|33800263|gb|CF325997.1|CF325997
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGGTGTGTGAGA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTG-TGTGTGAGA
EST: gi|33657535|gb|CF280149.1|CF280149
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88838687|gb|CI376225.1|CI376225
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|7273928|gb|AU083472.1|AU083472
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|7273929|gb|AU083473.1|AU083473
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|86834128|gb|CI340267.1|CI340267
EST:     GTACCTACCCCCTTTTCCAAGCTCTCATGATTGCCATGAGAGGTTGTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88442420|gb|CI541627.1|CI541627
EST:     TCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: TCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|1632714|gb|C20443.1|C20443
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|56550159|gb|CX056263.1|CX056263
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGC
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGC
EST: gi|88483545|gb|CI420816.1|CI420816
EST:     AGCTCTCATNATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: AGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|15846779|gb|BI795055.1|BI795055
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|14981446|gb|BI306124.1|BI306124
EST:     GTGTACCTACCGCCTTCTCCAAGCTTTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|86851635|gb|CI315213.1|CI315213
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|55433807|gb|CV730018.1|CV730018
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|29639860|gb|CB644869.1|CB644869
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88509138|gb|CI436644.1|CI436644
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88273960|gb|CI394366.1|CI394366
EST:     GTGTACCTACCCCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88455236|gb|CI516874.1|CI516874
EST:     ATGAGAGGTTTTG                         CTCTGGAGGTNTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: ATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33814329|gb|CF333037.1|CF333037
EST:     GTGTACCTACCGCCTTGTCCAAGCTATCATGATTCCCATGAGAGGTTTTG                         CTCTGAAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88380190|gb|CI516177.1|CI516177
EST:     CATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTNTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|14982055|gb|BI306733.1|BI306733
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88458856|gb|CI555537.1|CI555537
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88283638|gb|CI405084.1|CI405084
EST:     CTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88365225|gb|CI540537.1|CI540537
EST:     ATGAGAGGTTTTG                         CTCTGGAGGTGTTNTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: ATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|55411972|gb|CV724348.1|CV724348
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTT
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTT
EST: gi|33817964|gb|CF334810.1|CF334810
EST:     CATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|86598255|gb|CI354872.1|CI354872
EST:     GTGTACCTACCCCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33685153|gb|CF313392.1|CF313392
EST:     GTGTACCTACCGCCTTCTCCAAGCTTTCATGATTCCCATGAGAGGTTTTG                         CTTTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|700686|gb|D46977.1|D46977
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|87031002|gb|CI270150.1|CI270150
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88380927|gb|CI523498.1|CI523498
EST:     TGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: TGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|89170567|gb|CI039844.1|CI039844
EST:     CATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33657103|gb|CF279717.1|CF279717
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|11442549|gb|BF430452.1|BF430452
EST:     CCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|56158220|gb|C74678.2|C74678
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33657947|gb|CF280561.1|CF280561
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|8858736|gb|AU096054.1|AU096054
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33654531|gb|CF277145.1|CF277145
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|7273805|gb|AU083349.1|AU083349
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88288221|gb|CI515365.1|CI515365
EST:     TTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: TTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33800740|gb|CF326240.1|CF326240
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|86251532|gb|CI016821.1|CI016821
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88546389|gb|CI476022.1|CI476022
EST:     CTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTNG-TGGCTTCTCGAGATGGAAAGATTGTGTGTGAGA
genomic: CTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGT-GCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGA
EST: gi|88374382|gb|CI513469.1|CI513469
EST:     TACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: TACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33691600|gb|CF319839.1|CF319839
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33671066|gb|CF299305.1|CF299305
EST:     CATGATTCCCATGAGAGGTTTTG                         CTCTGAAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33794426|gb|CF323097.1|CF323097
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|33817923|gb|CF334790.1|CF334790
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88439985|gb|CI543902.1|CI543902
EST:     CGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|86603137|gb|CI357501.1|CI357501
EST:     GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|88455086|gb|CI516724.1|CI516724
EST:     GATTCCCATGAGAGNTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|87008526|gb|CI314984.1|CI314984
EST:     GTGTACCTACCCCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: GTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|86599044|gb|CI355661.1|CI355661
EST:     CCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
EST: gi|55413690|gb|CV726066.1|CV726066
EST:     CCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTG                         CTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA
genomic: CCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAA

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 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 72 (downstream exon)
Score: 195

ATGCGTCAAAAGCAGAAGTTCATCACCCAGAGATACTTGTTGACCACGATGTGTACCTACCGCCTTCTCCAAGCTCTCATGATTCCCATGAGAGGTTTTGgtaataaata ... gtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttaatcctgatatggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG
                               tgctaat  putative branch site (score: 195)
                                  taatataatgtgttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgaaatccatagcttcgtttcaatttcaatacttttactgtagttcttaatcctgatatggatcctgctgtttatgctaatataatgtgtttatgcagCTCTGGAGGTGTTGTGCTGGCTTCTCGAGATGGAAAGATTGTGTGTGAGAACACACTTGATGCCAGGCTGGAAGTTGTCTTCCGCAAGAAATTACCGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - -tttactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttatgct