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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtctcaactctccctatccttctgctgacttgctaaattaacatggtatttttttagcatctccagtgattcagcatgcaattttggtattttttttgtcttacattgatcattattttgttctgcagATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTCGAAATTTTCTACTTGCTGAGCGAATCATGCGATCTGCAAATTGTTCTCC

Basic information

species Glycine max
transcript GLYMA18G44210.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 6
gtaggtctcaactctccctatccttctgctgacttgctaaattaacatggtatttttttagcatctccagtgattcagcatgcaattttggtattttttttgtcttacattgatcattattttgttctgcagATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTCGAAATTTTCTACTTGCTGAGCGAATCATGCGATCTGCAAATTGTTCTCC
                                  | || | |   |||  || |     |  |   ||||||||  |        |  |    ||| ||||    |    ||||     |||   |  |||||||| || || ||||| ||||| |||||| |  | ||||| ||||| ||||| || ||  ||||||||||| |||||||||| || ||||||||||| ||
---------------------------------gtactga-tagtcattttaatcaca-attaatgccagtgatcaattgctttctcattcattttcttttaatctgttatgattcaactttcactacgcagATCTATTCCAAAGACTTTTCAGGCAGGATCTTTTGGTTGCTAGTCTCTTTCGCAACTTCTTACTTGCTGAGAGAATCATGCGGTCCGCAAATTGTTCCCC

upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 7
gtaggtctcaactctccctatccttctgctgacttgctaaattaacatggtatttttttagcatctccagtgattcagcatgcaattttggtattttttttgtcttacattgatcattattttgttctgcagATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTCGAAATTTTCTACTTGCTGAGCGAATCATGCGATCTGCAAATTGTTCTCC
                                  | || | |   | |  || ||    |  |   ||||||||  |        |  |    ||| ||||    |    ||||     |||   |  |||||||| || || ||||| ||||| |||||| |  | ||||| ||||| ||||| || ||  ||||||||||| |||||||||| || ||||||||||| ||
---------------------------------gtactga-tagtcgttttagttaca-attaatgccagtgatcaattgctttctcattcattttcttttaatctgttatgattcaactttcactgcgcagATCTATTCCAAAGACTTTTCAGGCAGGATCTTTTGGTTGCTAGTCTCTTTCGCAACTTCTTACTTGCTGAGAGAATCATGCGGTCCGCAAATTGTTCCCC

upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 7
gta-ggtctcaactctccctatccttctgctgacttgctaaattaacatggtatttttttagcatctccagtgattcagcatgcaattttggtattttttttgtcttacattgatcattattttgttctgcagATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTCGAAATTTTCTACTTGCTGAGCGAATCATGCGATCTGCAAATTGTTCTCC
||| ||  ||  |  |   || | || ||  ||      ||| ||  |    ||| ||  |            |||||  ||  ||| |  |  || |||| |  |||   ||||     |||   | ||||||||| || || || || ||||| || ||| | |||||||| || || ||||| || ||  | ||||||||| ||||||||||||| ||||||||||||||
gtatggcgtctgcgatgtata-ctttttggggatcaagaaaactag-agaaaattattcaa------------attcaaaata-aatgtcagc-ttattttgggttta---tgatacaagtttcactgtgcagATCTGTTCCAAAGGCTTTTCAGGCAAGATCTTCTTGTTGCTAGCCTCTTTCGTAACTTCTTGCTTGCTGAGAGAATCATGCGATCAGCAAATTGTTCTCC

upper sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 7
gtaggtctcaactctccctatccttctgctgacttgctaaattaacatggtatttttttagcatctccagtgattcagcatgcaattttggtattttttttgtcttacattgatcattattttgttctgcagATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTCGAAATTTTCTACTTGCTGAGCGAATCATGCGATCTGCAAATTGTTCTCC
                    |  ||    || ||| || | || |    | ||      | || ||      |||    ||    ||||  | |  ||   ||  || ||  ||  ||||||||| |||||||||||||||||||| ||||||| || ||  || | ||||| |||||||||||||||||  ||||||||||| |||| |||||||||||||| ||||| ||
-------------------gtaatttaattggcttactgattttatgcagcatgagca-atcagctgtta-aatttttaatttgtttttattctccttacggtggtatatgcatatttattttgtgctgcagATCTTTTTCAGAGATTGTTCAGGCAAGACCTGTTAGTTGCCAGTCTGTTTCGAAATTTCTTACTTGCTGAGAGAATTATGCGATCTGCAAACTGTTCCCC

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|193388895|gb|FK353570.1|FK353570
EST:     GATCTTTACAGCCGTAACTGATACGATTGCCTGGAATGTTCTTCCTCATG                         ATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTC
genomic: GATCTTTACAGCAGTAACTGATACGATTGCCTGGAATGTTCTTCCTCATGgtaggtctca ... tgttctgcagATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTC
EST: gi|6916382|gb|AW397912.1|AW397912
EST:     GATCTTTACAGCAGTAACTGATACGATTGCCTGGAATGTTCTTCCTCATG                         ATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTC
genomic: GATCTTTACAGCAGTAACTGATACGATTGCCTGGAATGTTCTTCCTCATGgtaggtctca ... tgttctgcagATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgcaattttggtattttttttgtcttacattgatcattattttgttctgcagATCTTTTTCAGAGACTGTTCAGACAGGATTTGCTTGTTGCAAGTCTGTTTCGAAATTTTCTACTTGCTGAGCGAATCATGCGATCTGCAAATTGTTCTCC
                                          ttttgttct  CT-rich tract
      aattttggtatttttt  TA-rich tract