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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaggtgtgttatttctagcttatgtctatttttgttcaaatggaagttgatgtagatttatttttgtcatcccctattcctagcagATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTGTCTGCAACATGAGAAAGTGCAACACACCCAAACC

Basic information

species Glycine max
transcript GLYMA11G36990.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G36990.3 (Glycine max), 3'ss of exon 6
lower sequence: AT1G67325.2 (Arabidopsis thaliana), 3'ss of exon 7
----------gtacaggtgtgttatttctagcttatgtctatttttgttcaaa---tggaagttgatgtagatttatt-----tttgtcatcccctatt------cctagcagATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTGTCTGCAACATGAGAAAGTGCAACACACCCAAACC
          | | || |  |   ||||    |   |   || |  | |  ||   |||   ||  | || | | ||       |||  ||   || ||        |  ||||| ||||||| || ||||| ||||||||||| || ||||| ||||| || || |||||||||||||| || |||||||| ||||||||||| || || ||
gtatgtgctagaagagttaggccttttcccattctagaacatgtcagctgtaaagctggcctttattttatagtgatagtcaacttgatatattctgttgtgttcttttacagATTCAACTCGCGATAATGATTGGACATGTCCGAATTGTGGTAATGTAAACTTCTCATTCAGAACTGTATGTAACATGAGGAAGTGCAACACTCCAAAGCC

upper sequence: GLYMA11G36990.3 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 6
-----------gtacaggtgtgttatttc-tagcttatg--tctatt-tttgttcaaatggaagttgatgtagatttatttttgtcatcccctattcctagc---agATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTGTCTGCAACATGAGAAAGTGCAACACACCCAAACC
             |||  | || |||||  ||  || ||   | ||| ||||     |||| |  |  | ||   | | | || ||||||  |      | |   ||||||||| ||||| ||||||||||| ||||| |||||||| |||||||| || || || |||||||| || |||||||| |||||||| ||||| |||||
gtgcaggcttgtcacacctttgctattttataaattgtgagccaattatttggcatcatggcaaattctttatcctgactgtt-tcatccttttaatgaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACC
















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|254316561|gb|GR828098.1|GR828098
EST:     GGTGCTAGGCCTGGATTTTTTCACGATGACA-GTCACAGAAAAAAG                         ATGCAACTCGTGACA-TGACTGGACATGTCCAAA-TGTGGCA
genomic: GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAGgtacaggtgt ... ttcctagcagATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCA
EST: gi|193303415|gb|FK271601.1|FK271601
EST:     GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG                         ATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAGgtacaggtgt ... ttcctagcagATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|9899202|gb|BE608100.1|BE608100
EST:     GGTGCTAGGCCTGGATTTTT-CACGATGACA-GTCACAGAAAAA-G                         ATGCAACTCGTGA
genomic: GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAGgtacaggtgt ... ttcctagcagATGCAACTCGTGA
EST: gi|192328242|gb|FK020461.1|FK020461
EST:     GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG                         ATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAGgtacaggtgt ... ttcctagcagATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT
EST: gi|254331208|gb|GR845787.1|GR845787
EST:     GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAG                         ATGCAACTCGTGACAATGACTGGACATGTCCCAAATGTGGCAATGTCAATT
genomic: GGTGCTAGGCCTGGATTTTTTCACGATGACAAGTCACAGAAAAAAGgtacaggtgt ... ttcctagcagATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttcaaatggaagttgatgtagatttatttttgtcatcccctattcctagcagATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTGTCTGCAACATGAGAAAGTGCAACACACCCAAACC
             agttgat  putative branch site (score: 5)
                             tttttgtcatccccta  putative PPT
                  atgtagatttattttt  TA-rich tract