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

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG

Basic information

species Oryza sativa
transcript LOC_Os10g28200.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G124434_T01 (Zea mays), 3'ss of exon 2
----------------------gtccggctctctcttttttttttacatatttttactgtta---tatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaac----taatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
                             | ||| | |   |  |  |||  ||  |   ||   || || |   ||          |||||      | | ||||||   | | |      |  |||||   |||||||||||||||||| |||||||||||||||||||| |||||||||||||| || || || ||| |||||||||||||||||||||||||||||
gtatatatacaaatatattgccacttcattttctttctggctggtgaataacttcccaagtaatctagctgatgctatttgactgaagttttcaaagaacctattcatgcataatagtatcattttggtctggcagGTTCTTCTATGCCTCGAGTGCATGCATTTACCCTGAGTTCAAGCAGCTTGACACAAATGTGAGCTTGAAGGAATCTGATGCCTGGCCTGCTGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagc----ctgagcttgttttatccatatcaa-------ttcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
     ||  ||       |  || ||  | |||  | ||  | |  |  ||       | | |  ||||||    | || |        || ||  |||   |  |||  |  | |||||| || |||||||| ||||| || || ||||||||||| || ||| | |||||||| || ||| ||||||| || ||||| ||||| ||||||
-gttagccatcatgcacatcatttcaattatttgtttttggaccaaacatttatgatgcggtggctgttttgattagatgatgatgtgttttatgcgttctgaaaaatatttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTTAAACAGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA20G36740.3 (Glycine max), 3'ss of exon 2
----gtccggctctctctttttttt-ttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaa-------ttcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
    ||   | ||  | |  |||   ||| || ||||      || |  |    | |    | |  ||||||    |||| |        || ||   || |||  |||| |  | |||||| || |||||||| ||||| || || |||||||||||||| ||| | |||||||| |||||| ||||||| |||||||| ||||| ||||||
gttagtgatggtccatatcatttcaattatatgtttt-gtgactaaacattttatgatgtggtgtctgttttgattatatgatgatgtgttttatgcattccaaaaaatgtttttccagGTTTTTTTATGCCTCTAGTGCTTGTATCTACCCTGAATTCAAACAGTTGGAAACTAATGTTAGCTTGAAGGAGTCTGATGCATGGCCAGCTGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA19G43400.1 (Glycine max), 3'ss of exon 2
gtccggctctctcttttttttttacatatttt-tactgttatatctca--gcttagcctgagctt---gttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
     |   |   ||||      |||| | || |  ||| |  |   |  || ||   |   |||   ||      ||||   || | | | ||     | ||  |  |  ||||| || |||||||| ||||| || || || ||||||||||| ||| | || || || || ||  ||||||| |||||||||||||||||||||
-----gtcattcattttaaacaaacatgtgttattatgtcactttcaattgcataatatagtctttatgtcgctgtcatagtgatccttgttttttggtttattttttttaagGTTTTTTTATGCCTCTAGTGCTTGTATCTATCCTGAATTCAAACAGTTGGAGACAAATGTGAGTTTGAAGGAGTCTGATGCCTGGCCTGCTGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA03G40720.1 (Glycine max), 3'ss of exon 2
gtccggctctctcttttttttttacatatttttactgttatatctcagctta--gcctgagcttgt-tttat-------ccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
             ||  ||||  ||| |  | |  | |||| || |     |  || |||  | || |||||        ||||   || | | | ||     | ||  |  |  ||||| || |||||||| ||||| || || || ||||||||||||||| | || || || || ||  ||||||| |||||||||||||||||||||
---------gtcattcattttgaacaaacatgtgttattatgtcactttcaattgcatgatatagtctttatgtcgccgtcatagtgatccttgttttttggtttatt-ttttttagGTTTTTTTATGCCTCTAGTGCTTGTATCTATCCTGAATTCAAGCAGTTGGAGACAAATGTGAGTTTGAAGGAGTCTGATGCCTGGCCTGCTGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S237_14V6.1 (Physcomitrella patens), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatgg-tcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGC---CTGAAGGAATCTGATGCCTGGCCTGCTGAG
          |  ||| || ||   || | | ||  ||   || |  |  |    |||  |       |    |    |    |   |     || ||| |  | |||||| |||||||||||||| || ||||||||||||||||||||||| || |||||| | || |||    ||||||| |||||||| ||||| |||  |
------agagcaatttgttgttctgatgtgtgtagggtcg-atttatgtcttttttgatatcacaa-gtatggagtggtagcctgagtgggtttagtggatgtttcagGTTTTTCTATGCCTCAAGCGCGTGCATTTACCCTGAATTCAAGCAACTCGAAACTGATGTGAGCAGTTTGAAGGAGTCTGATGCGTGGCCCGCTCTG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S98_250V6.1 (Physcomitrella patens), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCC---TGAAGGAATCTGATGCCTGGCCTGCTGAG
 | |   | | | ||||| ||   || |  |||| |||| |     || |       |   | |    | |  ||      |||| |        ||     | |||||| |||||||||||||| || || ||||||||||| ||||||||||| || ||| | || |||    |||| ||||| ||||| |||||||||  |
attcatatttgtatttttattcctcacaacttta-tgtt-tcctgtagatgttttgaaaactctggagttctgattgtggaatttttggtggaggat-----tgcagGTTTTTCTATGCCTCAAGCGCGTGTATTTACCCTGAGTTCAAGCAGCTGGAGACTGATGTGAGCTCTTTGAAAGAATCGGATGCTTGGCCTGCTCTG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ12864 (Selaginella moellendorffii), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
                                               | || |    | ||| || | |     |   |   ||   |     |     ||   |||||| |||||||| || || |||||||||||||| ||||||||||| |||||||| ||||| || || |||||||| ||||| ||||| || |||
-----------------------------------------------gtttggaaaaatctttttcttttttccttggtattttgact----ttttccttctcccagGTTTTTCTATGCATCCAGCGCATGCATTTACCCAGAATTCAAGCAACTTGAAACGAACGTGAGTCTCAAGGAATCGGATGCTTGGCCAGCAGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ36458 (Selaginella moellendorffii), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
                                        || |      |      |  ||||| |  |||      |  |  |    |   |  | | | | ||| || || ||||| || ||||||||||||||||| || || |||||||| || |||||||| ||  ||||||| || ||||| ||||| || |||
---------------------------------------gtagcctgtggtgtttctaagttgttcttcccaaggatttggagctcactctctttcttggcttccagATTTTTTTATGCGTCCAGTGCATGCATTTACCCCGAGTTTAAGCAGCTGGAGACTAACGTGAGTTTGAAGGAGTCAGATGCATGGCCGGCAGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ19598 (Selaginella moellendorffii), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
                                        || |      |      |  ||||| |  |||      |  |  |    |      | | | | ||| || || ||||| || ||||||||||||||||| || || |||||||| || |||||||| ||  ||||||| || ||||| ||||| || || 
---------------------------------------gtagcctgtgatgtttctaagttgttcttcccaaggatttggagctcactctctcgcttggcttccagATTTTTTTATGCGTCCAGTGCATGCATTTACCCCGAGTTTAAGCAGCTGGAGACTAACGTGAGTTTGAAGGAGTCAGATGCATGGCCAGCAGAA

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ10353 (Selaginella moellendorffii), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
                                        || |      |      |  ||||| |  |||      |  |  |    |      | | | | ||| || || ||||| || ||||||||||||||||| || || |||||||| || |||||||| ||  ||||||| || ||||| ||||| || |||
---------------------------------------gtagcctgtgatgtttctaagttgttcttcccaaggatttggagctcactctctctcttggcttccagATTTTTTTATGCGTCCAGTGCATGCATTTACCCCGAGTTTAAGCAGCTGGAGACTAACGTGAGTTTGAAGGAGTCAGATGCATGGCCGGCAGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ09286 (Selaginella moellendorffii), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
                                               | || |    | ||| |||| ||| |   | ||    | || |         ||   ||| || |||||||| || || |||||||||||||| ||||||||||| |||||||| ||||| || || |||||||| ||||| ||||| || |||
-----------------------------------------------gtttgggaaaatctttttttttccttggtattttgacttttcct--------tctcccagATTTTTCTATGCATCCAGCGCATGCATTTACCCAGAATTCAAGCAACTTGAAACGAACGTGAGTCTCAAGGAATCGGATGCTTGGCCAGCAGAG

upper sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ18599 (Selaginella moellendorffii), 3'ss of exon 1
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
                                        || |      |      |  ||||| |  |||      |  |  |    |   |  | | | | ||| || || ||||| || ||||||||||||||||| || || |||||||| || |||||||| ||  ||||||| || ||||| ||||| || |||
---------------------------------------gtagcctgtgatgtttctaagttgttcttcccaaggatttggagctcactctctttcttggcttccagATTTTTTTATGCGTCCAGTGCATGCATTTACCCCGAGTTTAAGCAGCTGGAGACTAACGTGAGTTTGAAGGAGTCAGATGCATGGCCGGCAGAG

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|33664528|gb|CF295495.1|CF295495
EST:     TGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCA-GCAGCTTG
genomic: TGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAA-GAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTG
EST: gi|29642006|gb|CB647013.1|CB647013
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29663379|gb|CB659654.1|CB659654
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29639582|gb|CB644591.1|CB644591
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29662156|gb|CB658431.1|CB658431
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|33795601|gb|CF323670.1|CF323670
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|33684622|gb|CF312861.1|CF312861
EST:     GATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTG-GNAAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTG
genomic: GATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTG-AA-GAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTG
EST: gi|29612786|gb|CB617799.1|CB617799
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29663824|gb|CB660099.1|CB660099
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29638323|gb|CB643332.1|CB643332
EST:     ATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATCCTTTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|33658335|gb|CF280948.1|CF280948
EST:     GATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTG-GAAAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTG
genomic: GATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAA--GAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTG
EST: gi|29656907|gb|CB653182.1|CB653182
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|33693065|gb|CF321304.1|CF321304
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|88367131|gb|CI563895.1|CI563895
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTGCTTCTATGCCTCAAGTGCATGCATTTACCCTGTATTCAAGCAGCTTGG
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29676976|gb|CB673251.1|CB673251
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|33796923|gb|CF324325.1|CF324325
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29668588|gb|CB664863.1|CB664863
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|14981732|gb|BI306410.1|BI306410
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCT
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCT
EST: gi|29656792|gb|CB653067.1|CB653067
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29663088|gb|CB659363.1|CB659363
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29662817|gb|CB659092.1|CB659092
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAACAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|2310372|gb|C26527.1|C26527
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|58677087|gb|CK065774.1|CK065774
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29669312|gb|CB665587.1|CB665587
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|86830786|gb|CI293774.1|CI293774
EST:     CAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         G-TCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGC-TGA
genomic: CAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|117230143|gb|CT846231.1|CT846231
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29680859|gb|CB677134.1|CB677134
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29638695|gb|CB643704.1|CB643704
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|33657604|gb|CF280218.1|CF280218
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29657346|gb|CB653621.1|CB653621
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTAAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|13420521|gb|AU174611.1|AU174611
EST:     GCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: GCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|8858460|gb|AU095778.1|AU095778
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29688060|gb|CB684335.1|CB684335
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29641880|gb|CB646887.1|CB646887
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
EST: gi|29672449|gb|CB668724.1|CB668724
EST:     ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAG                         GTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA
genomic: ATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGA

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), 74 (downstream exon)
Score: 56

GTATGGGGTTCATTCAGTCCAACCACTCTGTGATCATGTACAACAACACCATGATCAGTTTCAACATGCTCGAGGCTGCACGTATCAATGGTGTGAAGAGgtccggctct ... ggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG
                                      aactaat  putative branch site (score: 56)
                   atatcaattcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccggctctctcttttttttttacatatttttactgttatatctcagcttagcctgagcttgttttatccatatcaattcatttgttacaactaatggtcctacagGTTCTTCTATGCCTCAAGTGCATGCATTTACCCTGAATTCAAGCAGCTTGAAACTAACGTTAGCCTGAAGGAATCTGATGCCTGGCCTGCTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA