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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACGCTCACACTTCGCAAGCGTTTTTAATTCCGGACCAGGAGGAGGCAAAGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttttggtttggtgtcaataactgtgagtgatttgggaattattttacttgtagaaataatgtgtaacgaaatagttttgttttatgtag

Basic information

species Glycine max
transcript GLYMA19G17930.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G17930.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv14s0068g02030.t01 (Vitis vinifera), 5'ss of exon 3
AAACGCTCACACTTCGCAAGCGTTTTTAATTCCGGACCAGGAGGAGGCAAAGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttttggtttggtgtcaat------------aactgtgagtgatttgggaat---tattttacttgtagaaataatgtgtaacgaaatagttttgttttatgtag
||| ||||||||||| || |||||| | | ||| || ||||| ||||| | || ||||||||| |||||| ||   |||||||||||||||||||||||||||  || | ||         ||||            || | ||| |    | |  ||   | ||||| |  |  | |  ||    |   || | ||| | ||   |||||
AAATGCTCACACTTCTCATGCGTTTCTGACTCCTGATCAGGATGAGGCCAGGGATTATTTTGACAAGGCATCTCAATACTTTCAGCAAGCTGTTGATGAGgtaacttctctgccaaaaccacaatgtagtaatatgaaattatgaatacagtagatatctctgttttattcttgcaga--attctgataaaagtggttctcttacctgtag
















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|27425559|gb|CA937079.1|CA937079
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|8284555|gb|BE022123.1|BE022123
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAA
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|20498591|gb|BQ273521.1|BQ273521
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|31458839|gb|CD400867.1|CD400867
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|19269795|gb|BM886051.1|BM886051
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|23729216|gb|BU762696.1|BU762696
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|13252576|gb|BG363479.1|BG363479
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|151401792|gb|EV271605.1|EV271605
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|192312150|gb|FK005649.1|FK005649
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|13240002|gb|BG359311.1|BG359311
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|151394370|gb|EV264241.1|EV264241
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|10237666|gb|BE806554.1|BE806554
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|105633785|gb|DW247148.1|DW247148
EST:     ACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: ACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|58024209|gb|CX710950.1|CX710950
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGTTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|120496919|gb|EH225086.1|EH225086
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|192312151|gb|FK005650.1|FK005650
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|5753434|gb|AI960721.1|AI960721
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|14991587|gb|BI317260.1|BI317260
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|58016306|gb|CX703048.1|CX703048
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|8282903|gb|BE020464.1|BE020464
EST:     AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: AGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
EST: gi|20498257|gb|BQ273187.1|BQ273187
EST:     GGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGGTTGATGAG                         GATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG
genomic: GGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTG-TTGATGAGgtactttttt ... ttttatgtagGATCCTTCAAATGAACTTTACCGCAAATCATTGGAAGTGGCTGCTAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAACGCTCACACTTCGCAAGCGTTTTTAATTCCGGACCAGGAGGAGGCAAAGGTTTATTTTGATAAGGCAGCTGTGTACTTTCAGCAAGCTGTTGATGAGgtactttttttggtttggtgtcaataactgtgagtgatttgggaattattttacttgtagaaataatgtgtaacgaaatagttttgttttatgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT