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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAGGAAGATCGTGTGATTGAGAAGGAACAAGGTCTACCTCCTGCATTGCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttcttctcgatccctaacctagtttctgttcatgtttgaatattggaatattctaagattctctcgtcgtgttgtcaccgttacatgacctgaa...

Basic information

species Glycine max
transcript GLYMA10G44070.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G44070.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv13s0067g03320.t01 (Vitis vinifera), 5'ss of exon 2
GAAGAGGAAGATCGTGTGATTGAGAAGGAACAAGGTCTACCTCCTGCATTGCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttcttctcgatccctaacctagtttctgttcatgtttgaatattgga-atattctaagattct--ctcgtcg-tgttgtcaccgttacatgacctgaa
|||||||| ||||| |   | ||||||||| || |||| |||||||||||  | ||||| ||||| ||| | || || || ||||| ||||||||| |||||||||| | ||||    |||   ||  ||  ||   |  | | |||     | | |  |  | |||     | || | ||||  |   ||| |  ||   || 
GAAGAGGAGGATCGGGCTGTAGAGAAGGAAGAAAGTCTGCCTCCTGCATTATTGGGTAGCTGCAATGATAGGGCAAAACAACTTCATGCTTCTCCTTCAGgtcctctccctctctcatcct---ctctttcttgcataaatcttaatcagaaacaaaaacggaaattgaaattggtggatgtttaccttgtttctagaaaaga-
















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|298172736|gb|HO019776.1|HO019776
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|17020875|gb|BM091909.1|BM091909
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|7924311|gb|AW830337.1|AW830337
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCA-CTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|151401442|gb|EV271256.1|EV271256
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCGGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|15663792|gb|BI701163.1|BI701163
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|298169346|gb|HO020706.1|HO020706
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|151396981|gb|EV266854.1|EV266854
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|298165818|gb|HO008789.1|HO008789
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|193537519|gb|FK495898.1|FK495898
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|15663781|gb|BI701152.1|BI701152
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|151407346|gb|EV277161.1|EV277161
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGGCTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|193404282|gb|FK366588.1|FK366588
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|298181217|gb|HO022656.1|HO022656
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGTAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|151398731|gb|EV268602.1|EV268602
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|192305408|gb|FG998276.1|FG998276
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAACTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|192300527|gb|FG991509.1|FG991509
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|7691278|gb|AW759472.1|AW759472
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|4396047|gb|AI495044.1|AI495044
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|298190579|gb|HO032700.1|HO032700
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTCACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|298198081|gb|HO039620.1|HO039620
EST:     GCTAGGTAGTTGCAACGATCGGGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|193683137|gb|FK623017.1|FK623017
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|208307294|gb|GE108792.1|GE108792
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCA
EST: gi|193438604|gb|FK401867.1|FK401867
EST:     CAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: CAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|193356661|gb|FK320014.1|FK320014
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
EST: gi|298191405|gb|HO038884.1|HO038884
EST:     GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAG                         GGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA
genomic: GCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttct ... cgctgtgcagGGAGACTTCTTACGGCAATGATATGTGAATACCTTGACTGGGCGCAGCTCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAGGAAGATCGTGTGATTGAGAAGGAACAAGGTCTACCTCCTGCATTGCTAGGTAGTTGCAACGATCGAGCTAAGCAGCTTCACGCTTCTCCTCCAGgtcctcttcttctcgatccctaacctagtttctgttcatgtttgaatattggaatattctaagattctctcgtcgtgttgtcaccgttacatgacctgaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC