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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcattgcatgtcgattgaatcttatgcatgaaaaaaatatcgattatttcttgctttaaggatatacttgaagttgaactgttgttcagtgtggttaatgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTTCCACAGTGTGGATTTAGTTCTCTTGCAGTTAGAGTGTTACAACAATATG

Basic information

species Glycine max
transcript GLYMA13G44000.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G44000.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G15660.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgcattgcatgtcgattgaatcttatgcatgaaaaaaatatcgattatttcttgctttaaggatatacttgaagttgaactgttgttcagtgtggttaatgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTTCCACAGTGTGGATTTAGTTCTCTTGCAGTTAGAGTGTTACAACAATATG
           ||  | |  | ||| |  |      || |   || | ||||||   ||| |  | | ||   | |    |||||  | ||  | | |  | |||| ||||||| |||||||||||||||||||| |||||||||||||| ||||| | ||| |||||||| ||||| || || || || ||||| || || |||||| 
-----------gtacactccagcttctctagatttgaagt--tgaatgtttctt-tgttaggtgtttgct---aat---gctgtt--ttagctttggtggt-tgtgtagGATGTGAAGGATAATCCTGTTATGATCTACATGAAAGGTGTCCCTGAATCTCCTCAGTGTGGGTTTAGCTCACTAGCCGTCAGAGTTTTGCAGCAATATA
















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|17154054|gb|BM143987.1|BM143987
EST:     CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAGgtgcattgca ... atgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
EST: gi|151403951|gb|EV273761.1|EV273761
EST:     CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAGgtgcattgca ... atgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
EST: gi|58018776|gb|CX705518.1|CX705518
EST:     CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAGgtgcattgca ... atgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
EST: gi|193689192|gb|FK631403.1|FK631403
EST:     GGCTGATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
genomic: GGCTGATGTTATTGAGCAGgtgcattgca ... atgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
EST: gi|31462442|gb|CD404470.1|CD404470
EST:     CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAGgtgcattgca ... atgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
EST: gi|193377474|gb|FK341054.1|FK341054
EST:     CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGATTTACA
genomic: CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAGgtgcattgca ... atgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACA
EST: gi|208216921|gb|GE011215.1|GE011215
EST:     CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAG                         GATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT
genomic: CTAATAAACTTGAGAATTCCAACATTTCTTTGGCTGATGTTATTGAGCAGgtgcattgca ... atgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttaaggatatacttgaagttgaactgttgttcagtgtggttaatgtgtgcagGATGTCAAGGATAATCCTGTTATGATTTACATGAAAGGTGTGCCTGATTTTCCACAGTGTGGATTTAGTTCTCTTGCAGTTAGAGTGTTACAACAATATG
                                        ggttaat  putative branch site (score: 4)
         atatactt  TA-rich tract