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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtagttaccctcaaacttgtttcaatacataacacgcaaatgcttcccctatgacatgcttgctcctttaattccaattgggaaactgaatctcatcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTGCTGAAAATGTAGAAAGTGTATTGGATGAAATTCGACCCTATCTCATTGC

Basic information

species Glycine max
transcript GLYMA12G28900.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G28900.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os11g07916.1 (Oryza sativa), 3'ss of exon 2
gttagtagttaccctcaaacttgtttcaatacataacacgcaaatgcttcccctatgacatgcttgctcctttaattccaattgggaaactgaatctcatcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTGCTGAAAATGTAGAAAGTGTATTGGATGAAATTCGACCCTATCTCATTGC
   |    || |   |     |||||    |      |   | |||||       |||  ||        | | || | ||||  |    || ||     ||  | |||   | |||  | |||  |  ||  ||||||| || ||  ||||||| || ||||||||||| || | ||||||||||||| ||||||| || || || ||
--gaccttttgcttgctgtactgttttttcaggggtaattaagatgctgg----gtgaattgggattcagtatgatgctaattctgt--ttggatgctg-ctcttgcagTGGTTAAGGCTATTGCCAACCCAGACCCAGCAGTTGAGCTGCCATTGACAGCTGAAAATGTTGAGATTGTATTGGATGAAGTTCGACCATACCTTATGGC

upper sequence: GLYMA12G28900.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0035g00770.t01 (Vitis vinifera), 3'ss of exon 2
gttagtagttaccctcaaacttgtttcaatacataacacgcaaatgcttcccctatgacatgcttgctcctttaattccaattgggaaactgaatctcatcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTGCTGAAAATGTAGAAAGTGTATTGGATGAAATTCGACCCTATCTCATTGC
  ||| |   |  |  |||      | ||| | | |   |     ||||  |   |||  | ||   |   |   ||| |||   |   ||   |      || | ||| | | |||  ||||| ||| ||| |  |||| |||||||||||| ||||||| || ||||| ||||||||||| ||||| || ||||| ||||| ||| |
-ctagaaa--aggcgaaaagagtacttaatcctttatgtga----gcttttcaagtgattt-ctcattaagtct-ttcaaatattgcctctattttgttatttttccagTTGTCAAGGCTGTTGCTACCCCGGATTCAGCAGTGGAATTGCCACTAACTGCAGAGAATGTTGAAAGTGTATTAGATGAGATCCGACCATATCTTATTTC
















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|192301802|gb|FG994454.1|FG994454
EST:     GAGGCTGCTGTTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|120534155|gb|EH262288.1|EH262288
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|254347086|gb|GR856756.1|GR856756
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|192306232|gb|FG996846.1|FG996846
EST:     TTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: TTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|254347085|gb|GR856755.1|GR856755
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|120533173|gb|EH261306.1|EH261306
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|42723234|gb|CK769133.1|CK769133
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|298179078|gb|HO027549.1|HO027549
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTCGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|151410281|gb|EV280096.1|EV280096
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTTGCCATTAACT
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATT-GCCATTAACT
EST: gi|120534084|gb|EH262217.1|EH262217
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|151395888|gb|EV265765.1|EV265765
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATCGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|9205069|gb|BE331293.1|BE331293
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|6134669|gb|AW133062.1|AW133062
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|151398076|gb|EV267954.1|EV267954
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|192306231|gb|FG996845.1|FG996845
EST:     GAGGCTGCTGTTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|298166796|gb|HO010235.1|HO010235
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|298164410|gb|HO014055.1|HO014055
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
EST: gi|21994382|gb|BQ785910.1|BQ785910
EST:     GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTG                         CTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG
genomic: GAGGCTGCTGCTGCGTCCTTCTCTTGGGATTCATTTATCGCGTAGCTTTGgttagtagtt ... tcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgacatgcttgctcctttaattccaattgggaaactgaatctcatcttctacagCTTTAAAGTGTGTTGTTACTCCGAACCCAGCTGTGGAATTGCCATTAACTGCTGAAAATGTAGAAAGTGTATTGGATGAAATTCGACCCTATCTCATTGC
               ctttaat  putative branch site (score: 4)
                                        tctcatcttct  putative PPT
                tttaatt  TA-rich tract