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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgataattttatctcatcatgcgttttacttgaaattgtttcatttctggctttctaaatcaaaatatttggttcatgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAGCAGGGGGTACAATGAAACCGTCACAAAATCTACCCGAAGGTCAACAATC

Basic information

species Glycine max
transcript GLYMA04G41080.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G41080.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G27700.1 (Arabidopsis thaliana), 3'ss of exon 4
gtacgataattttatctcatcatgcgttttacttgaaattgtttcatttctg--gctttctaaatcaaaatatttggttcatga----tggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAGCAGGGGGTACAATGAAACCGTCACAAAATCTACCCGAAGGTCAACAATC
||| |  | |   ||   || ||  | |||        ||    || | | |  |  | |     |  ||| ||| |||   ||    | |||| ||| ||||| ||| | || ||| | |||||||| ||||||||||| ||| | | |||||||||||| ||| |||||||||| |||||||| ||||||||
gtatg-cactgaaatgagataataagctttggactgtttttacacaatgccgttgaatccagcggctgaatgttttgtttcggaaatgttgcagGTGTAGAAGCTAAACTTGACAAAGAGGCAAAGATCATAGTAGCTTGTTCATCCGCGGGTACAATGAAGCCGACACAAAATCTTCCCGAAGGCCAACAATC

upper sequence: GLYMA04G41080.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv16s0098g01280.t01 (Vitis vinifera), 3'ss of exon 4
gtacgataattttatctcatcatgcgttttact-tgaaattgtttc------atttctggctttctaa-atcaaaatatttggt-tcatgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAGCAGGGGGTACAATGAAACCGTCACAAAATCTACCCGAAGGTCAACAATC
|||   |  | ||| || ||||||| ||    | |   |||| |||      |||  ||| ||   |  | | |||| | |||| ||||| |  ||| ||| ||| | ||| ||||||| |  |||||||||||||| ||||||||| | |||||||| ||||||||||| ||||| || || ||||| || || ||
gtatattgttcttacctaatcatgctttgagttgttggattgcttctggataattcatggtttgggattaactaaatgtatggtatcatgctaacagGTGTGGAATCGAAAATAGATAAGAGCGCAAAGATAATAGTGGCTTGCTCATCTGGGGGTACCATGAAACCGTCCCAAAACCTCCCTGAAGGCCAGCAGTC
















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|31310357|gb|CD395560.1|CD395560
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|31305694|gb|CD390897.1|CD390897
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|22524166|gb|BU082977.1|BU082977
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|17963446|gb|BM270195.1|BM270195
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCA
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCA
EST: gi|31309501|gb|CD394704.1|CD394704
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCCAAATTAGATATAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|192321025|gb|FK013513.1|FK013513
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|31471152|gb|CD413180.1|CD413180
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTTATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|17964473|gb|BM271208.1|BM271208
EST:     NNNNNNNGGTATTTTTGCTGGGACTGAAGAGAATCC-GAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: TTTTTT-GGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|151402507|gb|EV272320.1|EV272320
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|31474466|gb|CD416494.1|CD416494
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
EST: gi|17963465|gb|BM270214.1|BM270214
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAA
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAA
EST: gi|15589894|gb|BI674510.1|BI674510
EST:     ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGT                         CTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG
genomic: ATTTTTTGGTATTTTTGCTGGGACTGAAGAGAATCCCGAGTTCATCCAGTgtacgataat ... atgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaattgtttcatttctggctttctaaatcaaaatatttggttcatgatggcagCTGTTGAAGCAAAATTAGATAAAAATGCAAAGATAATAGTAGCTTGCTCAGCAGGGGGTACAATGAAACCGTCACAAAATCTACCCGAAGGTCAACAATC
                      ttctaaa  putative branch site (score: 2)
                     tttctaaatcaaaata  TA-rich tract