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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaatgtgaacttttattctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATGCCTATGATTGACCAG

Basic information

species Glycine max
transcript GLYMA11G07530.4
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G07530.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g47600.2 (Oryza sativa), 3'ss of exon 5
gtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaatgtgaacttttat---tctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATGCCTATGATTGACCAG
                       ||  ||||||  ||   |    ||||| ||   ||  || ||   |||  | |  ||   ||    ||| |   ||     ||||||  ||  | ||||| |  ||||| || |||||||||||||| || |||||||||||||| |||
-----------------------gtaactgatg--gatgtgtgtgtgttttttaaaagaaaatatacaaaccttctctaacattgcttctttttctctcctgatagGAACAAGTTGTCCCTGGATGTTTCCTGCGAGCTCGTGCTATTGGGCTCATGCCTATGATTGATCAG

upper sequence: GLYMA11G07530.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G18230.1 (Arabidopsis thaliana), 3'ss of exon 5
gtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaatgtgaacttttattctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATGCCTATGATTGACCAG
||       ||      ||  ||   | | ||||| |  | ||  || | ||   ||| ||       ||| |  || | ||   |       | ||| | |||| || |||||  | || || ||||| ||||| ||||||||||| |||||||| |||||||| |||
gtgctttctctcgcctcatc-ttagctttcatgttcatacaaacttgat-gtaaacaggcagtgaaataacagacttgagataaaa-------tactgtgcagGAGCCTGTGCTAACCGGATCATTCCTCCGTGCCCGTGCTATTGGTCTAATGCCCATGATTGATCAG

upper sequence: GLYMA11G07530.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0023g02050.t01 (Vitis vinifera), 3'ss of exon 4
gtagcaatgcttaaaaaattattgtttctgatgttgaaccgaaaatgtttgtttccagccaaaatttcaactgtattaaaat--gtgaacttttattct-gagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATGCCTATGATTGACCAG
||||      || | | |  ||  |  |  |      |   |  |  | | |||         | || ||   ||| |||||   | || |     ||| | | |||| || || || |||||||| || |||||||||||||| |||||| |||||||||||||||| |||
gtagtgtcatttgacataccatcttaccacaatcatgatacattacatcttttttatttttctaattaaatcttataaaaattcatcaattcgccctctcgtgtagGAGCCGGTACTGCCTGGTTCTTTTCTTCGTGCTCGTGCGATTGGATTAATGCCTATGATTGATCAG

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|22928719|gb|BU545858.1|BU545858
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTNTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|254328447|gb|GR835412.1|GR835412
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192310086|gb|FK000650.1|FK000650
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|10254828|gb|BE822594.1|BE822594
EST:     GNNNCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|31469770|gb|CD411798.1|CD411798
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192333274|gb|FK026155.1|FK026155
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|58022382|gb|CX709123.1|CX709123
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|22930561|gb|BU547700.1|BU547700
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192321262|gb|FK014352.1|FK014352
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192325458|gb|FK018399.1|FK018399
EST:     ATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: ATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|58018488|gb|CX705230.1|CX705230
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCNTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|192316544|gb|FK009313.1|FK009313
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTTTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
EST: gi|193495770|gb|FK461108.1|FK461108
EST:     GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAG                         GAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG
genomic: GAACCATTTGTGAAGACAGTGATCCTATGGACGTGCTGGTTCTAATGCAGgtagcaatgc ... ttctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttccagccaaaatttcaactgtattaaaatgtgaacttttattctgagaagGAACCCGTGCTTCCTGGTTCCTTCCTTCGTGCTCGTGCTATTGGACTAATGCCTATGATTGACCAG
                                       cttttattct  CT-rich tract
            aaaatttcaactgtat  TA-rich tract