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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttgattgtgatggaaaggtttgatttcaattggcaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACAATCAAGTACCTTCGAGTTCCTGATGAG

Basic information

species Glycine max
transcript GLYMA19G39780.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G39780.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g15310.1 (Oryza sativa), 3'ss of exon 3
------gtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttgattgtgatgga-aaggttt-------gatttcaattggcaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACAATCAAGTACCTTCGAGTTCCTGATGAG
      ||  ||||   |||  | ||  ||| ||    || |||   | ||  || | |||||||| |    ||||       | ||    ||| || || |||| || ||||  |||||||||||||| ||||| || || || || || || |||||||| ||||| ||||||||||||
cgaattgtg-tgttctcttttgggtcatttggttccaattggtttgatcgt--ttagtttgtgatgaatgctgtttcctcattgtttatggttgtcattgcagGATGGTGATAAGTTTTGGAGGATGCCAGAATGTTACATCCGTGGGAACACCATCAAGTATCTTCGGGTTCCTGATGAG

upper sequence: GLYMA19G39780.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G27720.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------gtaatgttgcttttacgatcccttgcttgttttttgttgtcttgtaatttgattgtgatggaaaggtttgatttcaattggcaa-tgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACAATCAAGTACCTTCGAGTTCCTGATGAG
                  |||||| |   |  || | ||| ||    || ||  |    |  | ||    |||     |  | |  |     |||   | | ||||||||||||||||||||||||||||| ||||| ||||| || || || ||||||||||||||||||||||| ||||||
gttatcttatgttttcatatgttgatacaaatatactttgtttagacttcgtgatgaaattttgtgtagctgacactcatatattttgctgcttgattactctagGACGGAGATAGATTTTGGAGGATGCCGGAATGTTATATCCGTGGTAACACAATCAAGTACCTTCGAGTTCCGGATGAG

upper sequence: GLYMA19G39780.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0005g00230.t01 (Vitis vinifera), 3'ss of exon 5
------------gtaatgttgcttttacgatcccttgcttgttttttgtt-gtcttg-taatttgattgtgatggaaaggtttg-atttcaattggc--aatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACAATCAAGTACCTTCGAGTTCCTGATGAG
             |||| |  || ||    |   ||| ||  || || ||   ||||  | ||    | || |    |  ||    |||||   |    ||||||||| |||||||| |||||||| |||||||| ||||| || || || |||||||| || || ||||||||||||||||||
gtaatcaactctttaat-tgactgttcttgtttgttgtttacttcttatttaccttgacagttcttgtttgctcttcaaattcatgtttcatccgatttaatgtagGATGGAGATAGGTTTTGGAGAATGCCTGAGTGCTACATCCGTGGGAATACAATTAAATATCTTCGAGTTCCTGATGAG

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|15286667|gb|BI470558.1|BI470558
EST:     GCGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACA
genomic: GCGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggcaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACA
EST: gi|9259879|gb|BE348026.1|BE348026
EST:     GCGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACATCTAAA                         GACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACA
genomic: GCGATACATGGATGAACATCCATCTCCGAGAAGTCATTTGTACATCTAAAgtaatgttgc ... ggcaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgtcttgtaatttgattgtgatggaaaggtttgatttcaattggcaatgtagGACGGAGATAGATTTTGGAGGATGCCTGAATGCTATATACGAGGCAATACAATCAAGTACCTTCGAGTTCCTGATGAG
                               gtttgat  putative branch site (score: 5)
          taatttgatt  TA-rich tract