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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttcttttaatttatcttatttaagtaatagatttaaaccttttcttcagtcttccctacataagttctgaatcagacaattaatgatgagttgtgtagGTTTATGACACTTCAGGTTCTTCGGAAGGGTACACATCTGCGGCTTTTCATCCGGATGGTCTCATTCTTGGAACCGGCACCACAGAATCTCTTGTCAAGA

Basic information

species Glycine max
transcript GLYMA20G21330.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G21330.1 (Glycine max), 3'ss of exon 12
lower sequence: AT1G04510.1 (Arabidopsis thaliana), 3'ss of exon 12
----------------------------------------ttttcttttaatttatcttatttaagtaatagatttaaaccttttcttcagtcttccctacataagtt---ctgaatcagacaattaatgatgagttgtgtagGT-------TTATGACACTTCAGGT--------TCTTCGGAAGGG--------TACACATCTGCGGCTTTTCATCCGGATGGTCTCATTCTTGGAACCGGCACCACAGAATCTCTTGTCAAGA
                                         ||||   |   || | ||||   | ||  | | | |||| ||| | |   |  |    |  | | ||   ||   |   | || |  |  ||   || ||   |       || |     |||||||          | || ||  |        |||||  |||| ||||||||||| |||||||||||||||||||| || ||| |  ||||| |||| ||||
gtctccaaaattttaatccacacctgatacctgttatccagtttcagatttcttcttttatgctaatataacaatgaaacatttaccttctttattgtaatgtgaattagactcgttagaataaatgtttctgccatgcgtctttctcattattgttgttattcagGTGACAGATGCTTCCGAAAACGACGTGAATTACACGGCTGCTGCTTTTCATCCTGATGGTCTCATTCTTGGAACTGGTACCGCTCAATCTATTGTTAAGA

upper sequence: GLYMA20G21330.1 (Glycine max), 3'ss of exon 12
lower sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 12
ttttcttttaatttatcttatttaagtaata-gatttaaaccttttcttcagtcttccctacataagttctgaatcagacaattaatgatgagttgtgtagGTTTATGACACTTCAGGTTCTTCGGAAGGGTACACATCTGCGGCTTTTCATCCGGATGGTCTCATTCTTGGAACCGGCACCACAGAATCTCTTGTCAAGA---
     ||| |  | | || |  |  ||  |  | | ||    |    | |   || |  |||  | |       |      |||  |  |   || |  |||| |  ||   ||||     |   | ||  |||||  |||| ||||||||||| |||||||||||||| |||||||| ||  |  ||||| |||| ||||   
agcattttcatatcagctaaaatccgtggttcggtgtatggttagagtacgagctcctttactcatgaaagcctttgtcatattccttgttt-ttattcagGTATCAGATGATTCAAAGAAT---GTAGATTACACGGCTGCTGCTTTTCATCCCGATGGTCTCATTCTCGGAACCGGTACTTCTCAATCTGTTGTTAAGATTT
















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|193731316|gb|FK666640.1|FK666640
EST:     ATGGCTCTTGGTGCTTTTATGAACTTTCTTCAGGGACGTGTTTGACTCAG                         GTTTATGGCACTTCAGGTTCTTCGGAAGGGTACACATCTGCGGTCTTTTCA
genomic: ATGGCTCTTGGTGCTTTTATGAACTTTCTTCAGGGACGTGTTTGACTCAGgtatgatctc ... agttgtgtagGTTTATGACACTTCAGGTTCTTCGGAAGGGTACACATCTGCGG-CTTTTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcagtcttccctacataagttctgaatcagacaattaatgatgagttgtgtagGTTTATGACACTTCAGGTTCTTCGGAAGGGTACACATCTGCGGCTTTTCATCCGGATGGTCTCATTCTTGGAACCGGCACCACAGAATCTCTTGTCAAGA
                                  aattaat  putative branch site (score: 3)
                                  aattaatgat  TA-rich tract