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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttaatttgaattgtctagggtctgaaatagttcaagcccctaatgactagagttgattattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG

Basic information

species Oryza sativa
transcript LOC_Os04g51630.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 5
--attttaatttgaattgtctagggtctgaaa-tagttcaagc--ccctaatgactagagttgattattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
  |   |   |  ||| |   || ||||| |  |||||   ||  |  |  |   |         |  | ||   ||| ||| | |  |   |||| |   |||||||||| || |||||||||||| | || |||||||||||||||||||| ||||| || |||||||| || ||||||||  | |||||| |||||||||||
aaaacattgctacaatag--gagagtctggaggtagttactgcatctttgcttggtgactccagcttctcatgaccttgctaaactgatatatcttgt---ttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGGAAAACTGAACAAGCAGAGGATCCCTCTGTCTAACAACCAAGTCATCGAG

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G344279_T01 (Zea mays), 3'ss of exon 5
-attttaatttgaattgtctagggtctgaaatagttcaagcccctaatgactagagttgat----tattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
 |    |   | ||  |  ||  ||||| | ||||||  ||  || |          | ||    |   |||   |||||||   | |  | |||| |   ||||||||||||| ||||| |||||| | || |||||||||||||||||||||||||| || |||||||| || ||||||||  | |||||| |||||||||||
gaaaaaagcataaa--gcatactgtctggagtagttcctgcatcttagcttggtgactcatctgcttccgatgaccttactaacgtggcaaatcttgt---ttagGTACCCAAACTTGAACAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAATCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G094051_T03 (Zea mays), 3'ss of exon 5
attttaatttgaattgtctagggtctgaaatagttcaagcccctaatgactagagttgat----tattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
     ||  | ||      || | ||| | ||||||  ||  || |          | ||    |  ||||   ||||||| | | |  | |||| |   ||||||||||||| |||||||||||| | || ||||||||||||||||||||||||||||| |||||||| || ||||||||  | |||||| |||||||||||
-aaaaaacataaagcagacagtgcctggagtagttcctgcatcttagcttggtgactcatctgcttctgatgaccttactaaagtggcaaatcttgt---ttagGTACCCAAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAAGCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
attttaatttgaattgtctagggtctgaaatagttcaa-gcccctaatgactagagttgattattgatcttcttactagattagtgattcttatg------ttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
                      ||  |  | ||||||| | |  | ||    | |  || ||  | | || |      | ||  | ||  ||          || |||||||| ||||||||||||||    |||||||||||||||||||||||||||||  | |||||||| |||||  |  | |   |||||    |  | || 
----------------------gtaagtgaaagttcaacgacattgattgtcata--tggttcattacctgcaccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA08G23750.2 (Glycine max), 3'ss of exon 5
attttaatttgaattgtctagggtctgaaatagttcaagcccctaatgactagagttgattattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
          | ||  |       |||  ||| ||  |     | |||| || || |  ||||  | || || |  ||| |  ||   ||| |||||||| ||||||||| | ||||||||  | ||| | || |||||||| || ||||||||||| |||||||| || |   |||| ||  |||||    |||| |||
----------gtatgtttacttccctgccatactt--atttaattatgattataggtttttat--aactgctaatgagacttctg---cttttgttttagATACCCAAATCTTAAGAGTGTGAGAGAACTTATTTACAAGAGAGGGTATGGAAAGCTAAACAAGCAGAGGACTGCTCTAACTGACAACTCCATCATTGAG

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA15G18170.2 (Glycine max), 3'ss of exon 5
attttaatttgaattgtctagggtctgaaatagttcaagccc-ctaatgactagagttgattattgatcttcttactag-attagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
                      ||  |  | |||||||   |  | ||    |  ||| ||||         |   |   | || |      |    || |||||||| ||||||||||||||  | |||||||||||||||||||||||||||||  | |||||||| |||||  || | ||| |||||    | || || 
----------------------gtaagtgaaagttcaactacattgattctcatggttcattacctgcaccatggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTTAGAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCTTTGACAGACAACTCTATTATTGAA

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
attttaatttgaattgtctagggtctgaaatagttcaagcccct---aatgactagagttgattattgatcttct-tactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
         | | |     |   | ||   |  || ||  ||     || | ||| | |||  || |  || | | || |  |||  |  |||  || |||||||||||| |||||||||||||| || |||||||| ||||||||||| || |||||| | |||||||| ||||   |  | ||  |||||    |  | || 
--------gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgtatttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
------attttaatttgaattgtctagggtctgaaatagttcaagcccctaatgactagagttgattattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
      || ||| | |   |||| |      | ||||  |  ||     |    ||| | ||  |||||| |  ||  || |  |||  |  | |  || |||||||||||| |||||||||||||| || ||| |||| ||||||||||||||||||||| | |||||||| ||||   |  | ||  |||||    |  | || 
gtaagtatcttactct--tttgttttt--cttaaaatcctataaaaagttctgaacttgtgt--attattca--tttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv09s0054g00090.t01 (Vitis vinifera), 3'ss of exon 3
attttaatttgaattgtctagggtctgaaatagttcaagcccctaatga-----ctagagttgattattgatc-ttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
         | | |    ||   | |    |   | |||  ||||   |     ||  | |||  ||||  || ||  || |  |||  |  | |  || |||||||||||| |||||||||||||| || ||| |||| ||||||||||||||||||||| | |||||||| ||||   |  | ||  |||||    |  | || 
------gggtaagtatcttactcttttgtttttcttaagatcctataaaaagttctgaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv11s0052g00290.t01 (Vitis vinifera), 3'ss of exon 5
attttaatttgaattgtctagggtctgaaatagttcaagcccctaatgactagagttgattattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
              ||| |   | |||  |   |   | ||   |  ||  | |  |    ||  |   | ||| |    || |||   ||  |||| ||||| || ||||| ||||||||| | ||| |||| ||||||||||| |||||||| || |||||||| ||||   |||| ||  | |||  | |||| || 
-----------gtatgtgttctgactgccaacttcataaccttcagggatcatatctccacatgcaatctgttattcatatactgaagatt--gtttcagGTATCCCAATTTAAAGAGTGTCAGGGAACTGATTTACAAGAGGGGTTATGGAAAACTTAACAAGCAGAGAACTGCTCTGACTGATAACTCAATCATTGAA

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv09s0054g00060.t01 (Vitis vinifera), 3'ss of exon 4
attttaatttgaattgtctagggtctgaaatagttcaagccccta----atgactagagttgattattgatc-ttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
         | | |     |   | |    |   | ||   ||||    | | ||| | |||  || |  || ||  || |  |||  |  | |  || |||||||||||| ||||||||||||||  | |||||||| ||||||||||| ||  ||||| | |||||||  ||||   |  | ||  |||||    |  | || 
--------gtaagtatctcacccttttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGTGAGAATTGATTTACAAGAGGGGGTACAGAAAGTTGAACAAGCTGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
attttaatttgaattgtctagggtctgaaatagttcaagccccta----atgactagagttgattattgatc-ttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
         | | |     |   | |    |   | ||   ||||    | | ||| | |||  ||||  || ||  || |  |||  |  | |  || |||||||||||| |||||||||||||| || |||||||| ||||||||||| ||||||||| | |||||||| ||||   |  | ||  |||||    |  | || 
--------gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
lower sequence: PP1S2_667V6.2 (Physcomitrella patens), 3'ss of exon 3
---------------------attttaatttgaattgtctagggtctgaaatagt-tcaagcccctaatgactagagttgattattgatcttcttactagattagtgattc-ttatgttt-tagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
                     | |    |||| |   | |    |   ||   || |   |||      |||| |   ||  | ||||  |  | || || |  |   |   || || ||  |||||||| |||||||||||||| |||||||||||||| ||| | ||  | || ||| |   ||||  | |  || | |||||  |||| |   | ||||||
gtaggcagcgaatggcgtaaaactgagttttggagaatttcattttgaaagaggtgttttgccttccccgacttgttctggat-ttgaattgatcacgagttcggctttcaattgtgcttgcagGTACCCTAATTTGAAGAGTGTTCGTGAATTGATCTATAAGCGTGGGCACGGTAAGGTTGTCAAGTCACGTGTCGCCCTTACTGACAATACCATTATCGAG

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|2797323|gb|AA750617.1|AA750617
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|23380534|gb|BU666979.1|BU666979
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|38483035|gb|CF966837.1|CF966837
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|33683621|gb|CF311860.1|CF311860
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|58686835|gb|CK075522.1|CK075522
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|218489137|gb|FG964941.1|FG964941
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|29615310|gb|CB620322.1|CB620322
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|29618049|gb|CB623061.1|CB623061
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|58599035|gb|CK009563.1|CK009563
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAG
EST: gi|7378457|gb|AU088728.1|AU088728
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|29687687|gb|CB683962.1|CB683962
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|58596632|gb|CK007160.1|CK007160
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|29687177|gb|CB683452.1|CB683452
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGATCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|58687026|gb|CK075713.1|CK075713
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|5004133|gb|AU069282.1|AU069282
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagG-TACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATG
EST: gi|218499248|gb|FG947277.1|FG947277
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|5003988|gb|AU069137.1|AU069137
EST:     AAAGCCACCATTAACATGCTGCGCANGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|218489781|gb|FG969217.1|FG969217
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTCGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|29618047|gb|CB623059.1|CB623059
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|38475830|gb|CF959963.1|CF959963
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|58589167|gb|CF987475.1|CF987475
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|58693620|gb|CK082307.1|CK082307
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|33679130|gb|CF307369.1|CF307369
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
EST: gi|218485188|gb|FG948603.1|FG948603
EST:     AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGG                         GTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGG

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), 69 (downstream exon)
Score: 127

ATCTTTAATGGAGTGTTCTTGAAGGTCAACAAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctacc ... tatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgactagagttgattattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG
                       ttcttac  putative branch site (score: 127)
                                         ttcttat  putative PPT
                                        attcttatgtttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attttaatttgaattgtctagggtctgaaatagttcaagcccctaatgactagagttgattattgatcttcttactagattagtgattcttatgttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - -caagccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - gttgatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattct