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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacactacatctttttattaattaaatatattggtgaatggtgattggatattaattaagtgtgcaaagatttatcaattttttctctaactttcttctgcatatatacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGTCAGACCGTACTATCTGTCCCTCATTGAAAAG

Basic information

species Glycine max
transcript GLYMA08G21300.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G21300.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g36560.1 (Oryza sativa), 3'ss of exon 9
gtaacactacatctttttattaattaaatatattggtgaatggtgattggatattaat-taagt-gtgcaaagatttatcaattttttctctaactttcttctgcatatatacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGTCAGACCGTACTATCTGTCCCTCATTGAAAAG
                    |||   |  | |||| | |        || || ||||| ||  | ||   || || ||   |   |   |     |||||||||||            ||||||| ||||| ||||||||||||||     | || || ||||| | ||| |  || |||||  |||| ||||| ||||||
-------------------gtaagccaccagattgatcacc-----ctgcatcttaatgtatatagtatgaaaatgtactgaacatgaat--ggttttcttctgca------------gCAAATACGACCTGTACAGCAAGAGCAATGAGAGGATAGACGTTGAGAAGGTGAAGCCCTACTACATGTCACTCATCGAAAAG

upper sequence: GLYMA08G21300.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0002g02940.t01 (Vitis vinifera), 3'ss of exon 9
gtaacactacatctttttattaattaaatatattggtgaatggtgattggatattaattaagtgtgcaaagatttatcaattttttctctaactttcttctgcatatatacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGTCAGACCGTACTATCTGTCCCTCATTGAAAAG
|||| | |||   |||||  |       | || |  |   |  | | |  |  ||   |||      |||   | ||   ||| || || ||     | ||  ||||      |||||||||||||||||||||||||||||||| | ||||| |||||||| | |||||  ||||||||||| |||||||||||||||
gtaagattaccatttttttct-------tttactttttggtcctaactatactttgcctaa-----taaattctaat--gtttattttccaatgccttcctatatat------gcagCAAATATGACCTTTACAGCAAGAGCAAAGTCCGAATCGATGTTGAGAAGGTCAAGCCGTACTATCTTTCCCTCATTGAAAAG

upper sequence: GLYMA08G21300.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ20873 (Selaginella moellendorffii), 3'ss of exon 8
gtaacactacatctttttattaattaaatatattg-gtgaatggtgattggatattaattaagtgtgcaaagatttatcaattttttctctaactttcttctgcatatatacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGTCAGACCGTACTATCTGTCCCTCATTGAAAAG
||||    | |        |||  |   || |  | | | | | |  |    | |    | || |    ||| |     || | |      || |  ||  |   |       |||||||| |||||||||||||||||||||||| |  || | ||||| |||   |  | ||| || || || || |||||||| |||
gtaa--gcaaagagagagcttagattgctagaccgagagtaagcttttctagtctctggttagcggcttaagctgcgaaaactctactgacaaatccctgttctgt---cgtttgcagCAAGTATGACCTTTACAGCAAGAGCAAAGTCAGAGTCGATGTGGAAGCCGCAAAACCATATTACCTCTCACTCATTGACAAG

upper sequence: GLYMA08G21300.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ32371 (Selaginella moellendorffii), 3'ss of exon 8
gtaacactacatctttttattaattaaatatattggtgaatggtgattggatattaattaagtgtgcaaagatttatcaattttttctctaactttcttctgcatatatacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGTCAGACCGTACTATCTGTCCCTCATTGAAAAG
                    |||  ||| | |  | | |  | |   | |    |  ||| | |    ||| |     ||   |      || |  ||  |   |       |||||||| |||||||||||||||||||||||| |  || | ||||| |||   |  | ||| || || || || |||||||| |||
-------------------gtaagcaaagagagagctta--gattgctagtctctggtta-gcggcttaagctgcgaaaaccctactgacaaatccctgttctgt---cgtttgcagCAAGTATGACCTTTACAGCAAGAGCAAAGTCAGAGTCGATGTGGAAGCCGCAAAACCATATTACCTCTCACTCATTGACAAG

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|192304442|gb|FG997856.1|FG997856
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|14989999|gb|BI315672.1|BI315672
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|17022499|gb|BM093533.1|BM093533
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|7029108|gb|AW458891.1|AW458891
EST:     TGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|58015895|gb|CX702637.1|CX702637
EST:     TTGATGAATGATGAGGATTTTGAGAATTTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|15287557|gb|BI471448.1|BI471448
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|14991768|gb|BI317441.1|BI317441
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAA
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAA
EST: gi|9901421|gb|BE610389.1|BE610389
EST:     TGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|14991788|gb|BI317461.1|BI317461
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGC
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGC
EST: gi|58016178|gb|CX702920.1|CX702920
EST:     TTGATGAATGATGAGGATTTTGAGAATTTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|254329843|gb|GR839396.1|GR839396
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|10709600|gb|BF009324.1|BF009324
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
EST: gi|163926148|gb|EH038402.1|EH038402
EST:     TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAA                         CAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT
genomic: TTGATGAATGATGAGGATTTTGAGAATCTGAAATGGCTCCATATTTTCAAgtaacactac ... atacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgcaaagatttatcaattttttctctaactttcttctgcatatatacctgcagCAAATATGACCTTTACAGCAAGAGCAAAATTCGAATTGATGTTGAAAGGGTCAGACCGTACTATCTGTCCCTCATTGAAAAG
                        ctctaac  putative branch site (score: 2)
     aaagatttatcaattt  TA-rich tract