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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtctaataaatcccatgattatttgttatgttaaacattccccatgattatttgttttgttcttttaacatagtagattgatctgctgtattttatgcactaagtgataattggtgggtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCCATGCAAAATCAGTCTGAG

Basic information

species Glycine max
transcript GLYMA01G36990.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G36990.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g13970.2 (Oryza sativa), 3'ss of exon 8
gtatgtctaataaatcccatgattatttgttatgttaaacattccccatgattatttgttttgttcttttaacatagtagattgatctgctgtattttatgcactaagtgataattggtgggtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCCATGCAAAATCAGTCTGAG
                   | | ||||||||   |  |||      |||| | || | |    |  ||| |        || |||       | ||||   |  | |                  ||| |||| ||||| |||||||| |||||||| ||||| || ||||||||||| ||  ||||    |||   |||
------------------gtaagtatttgtt---tagaaccaatgacatgctaatctatag-atattttcattgcgtatgactgactcttgctgttttcccccttcaaa----------------ttgtagCTCCCTGGTGTTGACCCCAATGACCCCTCTGTGAAAGATTTGCTGGCATCATTGCATGGGCAGGGCGAG

upper sequence: GLYMA01G36990.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0023g03620.t01 (Vitis vinifera), 3'ss of exon 8
------------------gtatgtctaataaatcccatg--attatttgttatgttaaacattccc---catgattatttgttttgttcttttaacatagtagatt--gatctgctgtattttatgcactaagtgata-attggtgggtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCCATGCAAAATCAGTCTGAG
                     | || || || |   | |  |  |   |    |  | |||  | |   ||     |   |    |   |   || ||   ||||   ||||||||| | ||        | |  |   |||   |  ||| |||||||||| || |||||||| ||||| ||||| ||||| |||||||| || |||||||||||| |||| |||
gtatgtgactgaaccctcacttttccaaaaagtaaaaaggaaaaacaagcacaggcacacacacacacacacacacaagagagaggagatggaaaaatgacagatgaggatctgctgcagttagcatttcatgaaaagcattttcgattttgtgcagCTTCCAGGAGTTGACCCCAATGATCCTTCAGTCAAAGATTTGCTAGCATCCATGCAAAATGAGTCAGAG
















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|31305113|gb|CD390316.1|CD390316
EST:     TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
genomic: TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCGgtatgtctaa ... gtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
EST: gi|14990975|gb|BI316648.1|BI316648
EST:     TCAATCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
genomic: TCAATCCTTTGTATCTTCTATCCTTGCATCGgtatgtctaa ... gtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
EST: gi|151396744|gb|EV266617.1|EV266617
EST:     TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
genomic: TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCGgtatgtctaa ... gtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
EST: gi|10847418|gb|BF070105.1|BF070105
EST:     TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
genomic: TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCGgtatgtctaa ... gtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
EST: gi|16997110|gb|BM086482.1|BM086482
EST:     TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
genomic: TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCGgtatgtctaa ... gtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
EST: gi|192294443|gb|FG987372.1|FG987372
EST:     TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
genomic: TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCGgtatgtctaa ... gtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
EST: gi|13789154|gb|BG651745.1|BG651745
EST:     TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC
genomic: TGAGCAAATTGTTGGCCGATCAATCCTTTGTATCTTCTATCCTTGCATCGgtatgtctaa ... gtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagattgatctgctgtattttatgcactaagtgataattggtgggtttttgcagCTTCCTGGGGTTGACCCAAATGACCCTTCTGTCAAGGATTTGCTGGCTTCCATGCAAAATCAGTCTGAG
   gattgat  putative branch site (score: 4)
                                              tttttgc  putative PPT
              tgtattttat  TA-rich tract