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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgattcttttttggagttttttctttaatgtttggagctgtattttcagttaaatcatttctatcacttcctttctttcactgctaatgatagagtgctcttatttacttattagGCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGTCGAAATGCTATTGCATTGGAACAG

Basic information

species Glycine max
transcript GLYMA20G32370.1
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G32370.1 (Glycine max), 3'ss of exon 23
lower sequence: AT3G10380.1 (Arabidopsis thaliana), 3'ss of exon 23
gtgtgattcttttttggagttttt--tctttaatgtttggagctgtattttcagttaaatcatttc-tatcacttcctttctttca--ctgctaatgatagagtgctcttattt----acttattagGCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGTCGAAATGCTATTGCATTGGAACAG
||   | ||||  ||    | |||  |  ||   |||   |  || || | |  |   || |||   ||||   |   || |  ||  || ||||     ||  |   |||||     | ||  ||||||||||| || |||| ||| || || ||||| || ||||||||||| ||||| ||  |||||||| ||||||||
gtacaactcttcctttctatctttggtacttctagttcaaatttgaatataccatactataattcgatatccaataggttatcacaatcttctaaactgtgacagtatttattacgaaattttctagGCTTTGGCTGACATGAGATCAATCAACCTTTTCGGGGTTCAACAAATATGTCGGAACACTATTGCAGTGGAACAG

upper sequence: GLYMA20G32370.1 (Glycine max), 3'ss of exon 23
lower sequence: Vv13s0019g04770.t01 (Vitis vinifera), 3'ss of exon 21
----------------------------gtgtgattcttttttggagttttttct-ttaatgtttggagctgtattttcagtt-aaatcattt----------ctatcac-ttcctttctttcactgctaatgatagagtgctcttatttacttattagGCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGTCGAAATGCTATTGCATTGGAACAG
                             | |||   || || |    ||    |  | || |||     |||| ||  | || |||||| ||          |||| |  ||||||   | |||   |||| | ||| | |    |  |  ||  ||||||||||| || ||||||||||| || |||||||| ||||| || || ||||| ||| | |||||||||||||||
gtttgcatgttcccaacaatttgggtcaatttgaaatttattcgtgccttccattgcttatttttcagattgtagttctaattgaaatcaattgtagtggcacctattatgttccttgtatgcaccattaatcagagaatac----aaatgttttatagGCTTTGGCTGACATGAAATCCATCAACCTTTTTGGGGTTCAGCAGATATGTCGGAATTCAATTGCATTGGAACAG
















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|254330665|gb|GR841930.1|GR841930
EST:     ATTATATA-TTGGTGGAATTTGTGGGGTTGCAGCAAATGCATCTGTTAAG                         GC-TTGGCAGATATGAAATCCATAAATC-TTTTGGCGTTCAACAAATTTGT
genomic: ATTATATATTTGGTGGAATTTGTGGGGTTGCAGCAAATGCATCTGTTAAGgtgtgattct ... tacttattagGCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGT
EST: gi|254330664|gb|GR841929.1|GR841929
EST:     ATTATATATTTGGTGGAATTTGTGGG-TTGCAGCAAATGCATCTGTTAAC                         GCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGT
genomic: ATTATATATTTGGTGGAATTTGTGGGGTTGCAGCAAATGCATCTGTTAAGgtgtgattct ... tacttattagGCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGT
EST: gi|19452625|gb|BM954035.1|BM954035
EST:     CATCTGTTAAG                         GCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGT
genomic: CATCTGTTAAGgtgtgattct ... tacttattagGCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGT
EST: gi|51343541|gb|CO984274.1|CO984274
EST:     ATTATATATTTGGTGGAATTTGTGGGGTTGCAGCAAATGCATCTGTTAAG                         GCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGT
genomic: ATTATATATTTGGTGGAATTTGTGGGGTTGCAGCAAATGCATCTGTTAAGgtgtgattct ... tacttattagGCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatcacttcctttctttcactgctaatgatagagtgctcttatttacttattagGCTTTGGCAGATATGAAATCCATAAATCTTTTTGGCGTTCAACAAATTTGTCGAAATGCTATTGCATTGGAACAG
                     tgctaat  putative branch site (score: 2)
                                     ctcttattt  putative PPT
                                      tcttatttacttatta  TA-rich tract