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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatacactggaccctccctttacatctatttgtattctcataattcagatgtgtaaactcaatgaatgctttttagcctttcatgagagtcaactaaaagtttctcattatgctggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACTGAAATTGGGGCTCAAATAGAG

Basic information

species Glycine max
transcript GLYMA17G07380.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 16
gtgatacactggaccctccctttacatctatttgtattctcataattcagatgtgtaaactcaatgaatgctttttagcctttcatgagagtcaactaaaagtttctcattatgctggattga-agGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACTGAAATTGGGGCTCAAATAGAG
                                          ||| |   |  |   | |    | ||   ||||||    |||| | ||   |  |  ||  || | ||     |    ||  |||||||||| || | |||||||||||| ||||| || ||||||||||| | ||| || || ||    || |||
-----------------------------------------gtaactggaacattacagccttctaaag--ttttta----ttca-gggatctagatgtaatctttttatctctttctgctgttagGATGGTTCCCTGGATGAGCTTGTTCGCAAGCGCTACCAGAGTTTTGATAGTGAGATCGGTGCCTTGATTGAG

upper sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv11s0052g01710.t01 (Vitis vinifera), 3'ss of exon 19
gtgatacactggaccctccctttacatctatttgtattctcataattcagatgtgtaaactcaatgaatgctttttagcctttcatgagagtcaactaaaagtttctcattatgctggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACTGAAATTGGGGCTCAAATAGAG
|||||| |    || | | |||| || |||   | |    |  | |||   | | | |    | |   | | |||||      ||| | ||| ||       ||  |  || | ||| |   |||||||| ||| | |   | |||||||| ||||| ||||||||||||||||||||||| |||||||||||||||
gtgatata----actcactcttttcagcta---gcaactcccaacttct--tttattatgatattactttcattttaatgac-cataacagt-aatggttttttgttttttgtcctgaaaaaaagGATGGCTCTTTGGAGAATCTTGTTCGCAAGCGATATCAGAGTTTTGACACTGAAATCGGGGCTCAAATAGAG
















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|6725436|gb|AW309835.1|AW309835
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|151410382|gb|EV280197.1|EV280197
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|298173204|gb|HO020188.1|HO020188
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|18693005|gb|BM521853.1|BM521853
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|18733023|gb|BM527382.1|BM527382
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|21887322|gb|BQ740535.1|BQ740535
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|151407803|gb|EV277618.1|EV277618
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|5175496|gb|AI759829.1|AI759829
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATACTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|51335738|gb|CO979604.1|CO979604
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|22525640|gb|BU084451.1|BU084451
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|19934808|gb|BQ079838.1|BQ079838
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|5760217|gb|AI965580.1|AI965580
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGACAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGT
EST: gi|13252690|gb|BG363593.1|BG363593
EST:     AAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: AAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|9903061|gb|BE612029.1|BE612029
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|163921552|gb|EH039311.1|EH039311
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|192327522|gb|FK018198.1|FK018198
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
EST: gi|298193926|gb|HO040574.1|HO040574
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCG
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCG
EST: gi|22932991|gb|BU550130.1|BU550130
EST:     GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAG                         GATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT
genomic: GAATGGATACCCTGGCCCGTGGCCTGAGGAATGCTGCCAAGTTGATTGAGgtgatacact ... tggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttttagcctttcatgagagtcaactaaaagtttctcattatgctggattgaagGATGGTTCTCTTGCTGAGCTTGTTCGTAAGCGTTATCAGAGTTTTGACACTGAAATTGGGGCTCAAATAGAG
                       aactaaa  putative branch site (score: 2)
                          taaaagttt  TA-rich tract