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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgttcgtcttccttaattaatttccctttctgccatttcctctttttttttttttcatttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG

Basic information

species Glycine max
transcript GLYMA02G01930.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
gttcgttcgtcttccttaattaatttccctttctgccatttcctctttttttttttttcatttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG
               ||    |  |   ||||  || |  ||   |||| | || |          | |   |     ||| ||  |       |||   ||||| |||||||| || || || |||||| ||||||||||||| ||||||||    ||||| || ||||| ||||| ||  | ||||| ||||||||||||
--------------gttcgggatctgatctttacgcaacgtcgaattttctcttatcctcgagggaaacgtttcacagtgttttatttgttgtgtgtctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG

upper sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 1
gttcgttcgtcttccttaattaatttccctttctgccatttcctctttttttttttttcatttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG
            | |  ||| |  |        |   || || |  |  | |       |  | || ||  ||| |  | ||||  |      ||||   ||||||||||||||||| || || |||||| | ||||||||||| || |||||   |||||| || ||||||||||| ||| | || || ||||| ||||||
-----------gttcggaatcagatctttacgatat-atatcgttctgatctcgagggaaaatattctcacatttttatttgttgtt------ctgtgtcagATTATGGGGAGCACAGACGCAGAGATCGCTTCAGAACTTCGAGATTGGTGGTGACCGCGAGCGAATGCCCGAACCAATCGTCCGAGCTTTTGGTGTCTTG

upper sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 2
gttcgttcgtcttccttaattaatttccctttctgccatttcctctttttttttttttcatttcttatctgattgtgtt--gtgtttctgaactactgttat--agATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG
        |   |    || | || |   |       ||||    |  || |    |   | |  ||     || | ||   | ||| || |||  | |  |  ||||| ||||| ||||||||||||||||| |||||||| || ||||| |||||    || ||||  ||||| ||||| |||||||| || |||||| || | 
-----acggatgtatagaagtgatgtga-tacaaaagatttaagttaattctggaataggtatggtaataacttatttttaatttttttggactgatatctttcagATTGTGGGGTGCACAAACTCAAAGATCATTGCAGAATTTTGATATTGGTGGTGAGCGTGAACAAATGCCTGAACCAATCATTCGAGCTTTTGGCATCCTT

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|19935949|gb|BQ080654.1|BQ080654
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
EST: gi|19934370|gb|BQ079400.1|BQ079400
EST:     TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAA                         ATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG
genomic: TTCAGGGAAGAAAGAGATACCTTTGGAGCCATTCAAGTTCCCTCCGAGAAgttcgttcgt ... actgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttttcatttcttatctgattgtgttgtgtttctgaactactgttatagATTATGGGGAGCACAAACTCAAAGATCGTTGCAGAACTTCGATATCGGTGGGCCCCGCGAACGCATGCCCGAACCCATCATTCGCGCCTTTGGCGTCTTG
                   atctgat  putative branch site (score: 4)
     ttttttcatttcttat  TA-rich tract