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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaacacgataattttctactgggtgttttgcttataatcaatgctttttattttaatttgtaactgtgggagcaacaaatttttcttttcttttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTAGAGCGGGAAAAGATTATTCATTG

Basic information

species Glycine max
transcript GLYMA14G39890.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G39890.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0001g00500.t01 (Vitis vinifera), 3'ss of exon 11
aaacacgataattttctactgggtgttttgcttataatcaatgctttttattttaatttgtaactgtgggag-----caacaaatttttcttttct-tttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTAGAGCGGGAAAAGATTATTCATTG
        |   ||| |  || |  |||| ||    | | || | |  |  |||  ||| ||    | | ||        ||  |  ||||||| |  ||| ||||||| |||||||||| ||||| ||||||||||| || || || ||||| ||||| || ||||||||||| |||||
------attttatttgttttgcggctttttctggccagccattcctagtggttttgtttttattaatcgaaggtctttgtcacttgattcttttgtacttgtgcagAAAATTTTGCAGAGAACTCCAATAAGGGTGCTTCACCGACGAAGTCCATTAGAACGTGAAAAGATTATACATTG
















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|19452333|gb|BM953743.1|BM953743
EST:     GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTG                         AAAGTTTTGCAGAGGACTCCTATAAGGGTGCTA
genomic: GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTGgtgagctttt ... ttttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTA
EST: gi|14259851|gb|BG882759.1|BG882759
EST:     GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTG                         AAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
genomic: GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTGgtgagctttt ... ttttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
EST: gi|51342518|gb|CO983503.1|CO983503
EST:     GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTG                         AAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
genomic: GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTGgtgagctttt ... ttttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
EST: gi|58017398|gb|CX704140.1|CX704140
EST:     GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTG                         AAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
genomic: GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTGgtgagctttt ... ttttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
EST: gi|208221094|gb|GE020764.1|GE020764
EST:     ACTCAAGGATTTG                         T
genomic: ACTCAAGGATTTGgtgagctttt ... ttttgagcag-
EST: gi|208221094|gb|GE020764.1|GE020764
EST:     ACTCAAGGATTTG                         T
genomic: ACTCAAGGATTTGgtgagctttt ... ttttgagcag-
EST: gi|58017203|gb|CX703945.1|CX703945
EST:     GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTG                         AAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
genomic: GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTGgtgagctttt ... ttttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
EST: gi|51342063|gb|CO983330.1|CO983330
EST:     GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTG                         AAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA
genomic: GTCCTCTAAAGGATGAAGATATTCAATGTGTTTCTTCACTCAAGGATTTGgtgagctttt ... ttttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttattttaatttgtaactgtgggagcaacaaatttttcttttcttttgagcagAAAGTTTTGCAGAGGACTCCTATAAGGGTGCTACATCGTCGCAGTCCTTTAGAGCGGGAAAAGATTATTCATTG
            ttgtaac  putative branch site (score: 2)
                                  tttttcttttctttt  putative PPT
                            aacaaatttttctttt  TA-rich tract