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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGTTGAGAAGCTTATTCCGTCGAAAATGATGCTTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgccattaaccccttatcttgttttgattttgtaaatatccgaaagagatttgcataaaagagacgtggttttactggcatttgttaacaagct...

Basic information

species Glycine max
transcript GLYMA19G17920.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G17920.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0040g00410.t01 (Vitis vinifera), 5'ss of exon 3
GGCGTTGAGAAGCTTATTCCGTCGAAAATGATGCTTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgccat--taaccccttatcttgttttgatttt-gtaaatatccgaaagagatttgcataaaagagacgtggttttactggcatttgttaacaagct
|| || |||||||||||  |||| || |||||| | |||||||||||||||||||| || || || ||||| || ||||| ||||||  ||   ||  |  | | | || ||  || || ||  ||   | |          || | ||      |  | |  |||      ||||           
GGAGTAGAGAAGCTTATAGCGTCCAAGATGATGTTGCCGGGTTCCAATAGAAGAATTCATTCTGTGCATCGCCATTCTGGCATGgtaactttttatgcttgctcataatttttattcgagttcagtgtttcttttctctttgttagtatttgttggtggagaatttttcaatatttaaatttgg---
















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|298166742|gb|HO010181.1|HO010181
EST:     TTCCGGGTTCCAATGGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGTAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|151409523|gb|EV279331.1|EV279331
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|151406675|gb|EV276490.1|EV276490
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|151405011|gb|EV274825.1|EV274825
EST:     CGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: CGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|151411404|gb|EV281215.1|EV281215
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|192334682|gb|FK025887.1|FK025887
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|151409103|gb|EV278911.1|EV278911
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|192324735|gb|FK018771.1|FK018771
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|192325082|gb|FK017498.1|FK017498
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|26048077|gb|CA784674.1|CA784674
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|192325978|gb|FK016655.1|FK016655
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|298176424|gb|HO026659.1|HO026659
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|16344394|gb|BI969989.1|BI969989
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|16344458|gb|BI970053.1|BI970053
EST:     TNNNGGGTTCNNATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|254321256|gb|GR827705.1|GR827705
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|16347339|gb|BI972934.1|BI972934
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|20498037|gb|BQ272967.1|BQ272967
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|254321257|gb|GR827706.1|GR827706
EST:     TCCGGGTTCCAATAGAAGAATACACTCCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TCCGGGTTCCAATAGAAGAATACACT-CCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|26047788|gb|CA784463.1|CA784463
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|208110680|gb|GD913200.1|GD913200
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAAGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCTAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
EST: gi|6726863|gb|AW311282.1|AW311282
EST:     TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATG                         GCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG
genomic: TTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgcc ... ccaattttagGCTGTAGCAGGATTAGCAGCTGATGGCAGGCAAATTGTTGCTAGGGCCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCGTTGAGAAGCTTATTCCGTCGAAAATGATGCTTCCGGGTTCCAATAGAAGAATACACTCCGTTCATCGTCACTCTGGGATGgtacgttgccattaaccccttatcttgttttgattttgtaaatatccgaaagagatttgcataaaagagacgtggttttactggcatttgttaacaagct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaagaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaga