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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcatttggtctctttactgtgctgttccagtccttggcaggatttgtgagctaattccttctggcatgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC

Basic information

species Oryza sativa
transcript LOC_Os05g03480.4
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G052630_T02 (Zea mays), 3'ss of exon 4
gtaagtatcatttggtctctttactgt-gctgttccagtccttggcaggatttgtgagctaattccttctggca---tgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC
|| |||| ||||   |  |  | | || |||||||  || ||| ||  ||  |  ||     ||||||||| |    |||  |  | || |||||||||| |||||||||||||||||||||||||||||||||||||| || || || |||||| |||| ||||||||||||||||||||||| ||||| |||||
gtcagtaccattccattccgcttccgttgctgttct-gttcttcgccagaagtacgataaggttccttctgacgcgttgctgaaatgtaatttcagCTGGCTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTGGACGGCGGCTATGTCCTTAATGGGAATAAGATGTGGTGCACCAATGGGCCGTCTGC

upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G381051_T03 (Zea mays), 3'ss of exon 5
gtaagtatcattt-ggtctctttactgtgctgttccagtccttggcaggatttgtgagctaattccttctggcatgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC
|| |||| ||||     | | || |||  ||||||   ||    |||| | |  | || |   | ||   |   |||  |  | || |||||||||| |||||||| ||||| ||||||||||||||||||||||| || ||||| |||||| |||| ||||||||||||||||||||||| || || |||||
gtcagtaccattccaaccccgttgctgctctgttct--tctccagcagtact-ataaggttccttctaacgcgttgctgaaatgtaatttcagCTGGCTCTGATGTCGTCAGCATGAAGTGCAAAGCTGAGAAAGTGGACGGTGGCTATGTCCTTAATGGGAATAAGATGTGGTGCACCAATGGCCCGTCTGC

upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA11G15900.1 (Glycine max), 3'ss of exon 6
gtaagtatcatttggtctctttactgtgctgttccagtccttggcaggatttgtgagctaattccttctggcatgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC
|||||     | ||  || |  | | |  |||        |||  |   |    |  ||  || ||    | ||  || ||||| |    ||||||||||||||||||||| ||||| ||||| |||||    |||||||| || |||||  |||| ||||| ||||||||||| || || ||||||  |||
gtaaga--tgtgtgaact-tgaattataatgtcttgcattttgagatattccaaggact--ttactaagtgaataact-tttctgc----agCTGGTTCTGATGTTGTCAGCATGAAATGCAAGGCTGATCGTGTAGATGGGGGCTATGTACTTAATGGGAACAAGATGTGGTGTACTAATGGGCCAGTTGC

upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 6
gtaagtatcatttggtctctttactgtgctgttccagtccttggcaggatttgtgagctaattccttctggcatgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC
|||||     | ||  || |  | | |  | |        |||  ||   ||   ||  | || |     | |||    ||||| |    ||||||||||||||||||||| ||||| ||||| |||||    |||||||| || |||||  |||| ||||| ||||||||||| || || ||||||  |||
gtaaga--tgtgtgaact-tgaattataatatcttgcattttg--agatattccaaggaatttacaaagtgaatgaacttttctgc----agCTGGTTCTGATGTTGTCAGCATGAAATGCAAGGCTGATCGTGTAGATGGGGGCTATGTACTTAATGGGAACAAGATGTGGTGTACTAATGGGCCAGTTGC

upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 5
lower sequence: AT3G45300.1 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------gtaagtatcatttggtctctttactgtgctgttccagtcct-tggcaggatttgtgagctaattccttctggcatgcctatttctac--tttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC
                         |    |   |||  |       |         | ||  | | | || |    | ||  || ||   | |||   || || ||| |    || |||||||||| ||||||||  | ||||| ||||| |||||||| ||||||||||||||| |  | || || || |||||||||||||| || || ||||||||
gtaagatatatatttttcggatcaagagtttgagattgtgagaaggaaacacatcaatacatacatatagccgatgctttgttctgatgtatactgatttgactttttatttcgttacagCTGGTTCAGATGTTGTTGGCATGAAATGCAAGGCTGAGAAGGTAGATGGTGGTTATATACTAAATGGCAACAAGATGTGGTGCACTAATGGTCCATCTGC

upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv06s0004g03140.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------------------gtaagtatcatttggtctctttactgtgctgttccagtccttggcaggatttgtgagctaattccttctggcatgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC
                                       |||  |  | ||||  |       |  ||  |   ||  | |   || || ||     ||||        |    || | | |   ||||||||| ||||||||||| ||||||||||| ||||||||    || ||||| |||||| |  | || || || ||||||||||||||||| || |||  |||
gtaatttatgtgaactgcttagtatatgtctcatattcataaagag-agttggcattgggctggcacttgttgggttttggcttggcttggttgtgcaatttggctgaactcttctgtgttt-tgttcagCTGGCTCTGATGTTGTTAGTATGAAGTGTAAAGCTGATCGTGTTGATGGGGGTTATATTTTAAATGGAAACAAGATGTGGTGCACCAATGGTCCAATTGC

upper sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 5
lower sequence: EFJ09244 (Selaginella moellendorffii), 3'ss of exon 7
gtaagtatcatttggtctctttactgtgctgttccagtccttggcaggatttgtgagctaattccttctggcatgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC
              || | | | || |  |  |  |    || || |||||  | ||           ||| ||    |  | || || |||||||||||||||| || || ||||| ||||||||||||      ||    || |||||  | || || || || ||||||||||| || || ||   |||
--------------gtatgtat-ctctttttctttatgttttcgctggatt-ataaggagg-----catggtat--tgacctttatttgcagCTGGTTCTGATGTGGTGAGCATGAAATGCAAAGCTGAGCGTCGGGACAAGGGATATGTTCTAAATGGAAACAAAATGTGGTGCACAAATGGACCTGTTGC

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|29665694|gb|CB661969.1|CB661969
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|58675201|gb|CK063888.1|CK063888
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29661037|gb|CB657312.1|CB657312
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29678947|gb|CB675222.1|CB675222
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29637530|gb|CB642539.1|CB642539
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29661524|gb|CB657799.1|CB657799
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29668355|gb|CB664630.1|CB664630
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29642007|gb|CB647014.1|CB647014
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|58588211|gb|CF986519.1|CF986519
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29664861|gb|CB661136.1|CB661136
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29661039|gb|CB657314.1|CB657314
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29669233|gb|CB665508.1|CB665508
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29662792|gb|CB659067.1|CB659067
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29663795|gb|CB660070.1|CB660070
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29637231|gb|CB642240.1|CB642240
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29642660|gb|CB647667.1|CB647667
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29663209|gb|CB659484.1|CB659484
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29642658|gb|CB647665.1|CB647665
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29671620|gb|CB667895.1|CB667895
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29670746|gb|CB667021.1|CB667021
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29664640|gb|CB660915.1|CB660915
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|58595349|gb|CF993657.1|CF993657
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|58655315|gb|CK043995.1|CK043995
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29659705|gb|CB655980.1|CB655980
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29681462|gb|CB677737.1|CB677737
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|58666277|gb|CK054963.1|CK054963
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29674356|gb|CB670631.1|CB670631
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29682069|gb|CB678344.1|CB678344
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29666865|gb|CB663140.1|CB663140
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29623029|gb|CB628040.1|CB628040
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29680931|gb|CB677206.1|CB677206
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29657680|gb|CB653955.1|CB653955
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29664203|gb|CB660478.1|CB660478
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29674433|gb|CB670708.1|CB670708
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGGTCTGATGTTGTCAGTATGAAGTGCCAAGCTGACAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29661262|gb|CB657537.1|CB657537
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29614820|gb|CB619833.1|CB619833
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29643545|gb|CB648552.1|CB648552
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|58689911|gb|CK078598.1|CK078598
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGA
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGA
EST: gi|29658881|gb|CB655156.1|CB655156
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29657355|gb|CB653630.1|CB653630
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|33683556|gb|CF311795.1|CF311795
EST:     TGGGGATCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29675356|gb|CB671631.1|CB671631
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29672429|gb|CB668704.1|CB668704
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29664256|gb|CB660531.1|CB660531
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29661229|gb|CB657504.1|CB657504
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29641738|gb|CB646745.1|CB646745
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29658317|gb|CB654592.1|CB654592
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29668395|gb|CB664670.1|CB664670
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29680249|gb|CB676524.1|CB676524
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29637190|gb|CB642199.1|CB642199
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|33654177|gb|CF276791.1|CF276791
EST:     TAATCAGTGGGGAGCATGGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAG
genomic: T-----G-GGG-AGCATG-TGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAG
EST: gi|29680494|gb|CB676769.1|CB676769
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29641375|gb|CB646382.1|CB646382
EST:     TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
EST: gi|29661171|gb|CB657446.1|CB657446
EST:     TAATCAGTGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACT                         CTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG
genomic: T-----G-GGG-AGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTG

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), 65 (downstream exon)
Score: 83

TGGGGAGCATGTGGGGGCATTGGCGATGAGCGAACCCAACTgtaagtatca ... ctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttggcaggatttgtgagctaattccttctggcatgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC
                  agctaat  putative branch site (score: 83)
                                      cctatttctactttc  putative PPT
                                        tatttcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtatcatttggtctctttactgtgctgttccagtccttggcaggatttgtgagctaattccttctggcatgcctatttctactttcagCTGGTTCTGATGTTGTCAGTATGAAGTGCAAAGCTGAGAAAGTAGATGGTGGTTATGTCATTAACGGGAATAAGATGTGGTGCACCAACGGGCCATCTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG