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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGGAGAACTTGCTTGCACTATGCCGCTTATTATGGAAATATAGACTGCCTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacacaattctctctctctctcttcatacacacacaggcacacccaatatcgatccaagcatatacaagaatgactggtgatgctaattgttcaatggaattgtcag

Basic information

species Glycine max
transcript GLYMA08G47310.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G47310.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0007g00200.t01 (Vitis vinifera), 5'ss of exon 4
GTCGGAGAACTTGCTTGCACTATGCCGCTTATTATGGAAATATAGACTGCCTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacacaattctctctctctctcttcatacacacacaggcacacccaatatcgatccaagcatatacaagaatgactggtgatgctaattgttcaatggaattgtcag
 | | ||||| |||||||| ||||| ||||| |||||  ||   || |||||  | |  |||||||||||||| |||||||| ||| |||||| |||||||| ||     ||| |  | ||  ||   |     | | |   ||     | |||| |||     || || |    || ||||| |||   ||||   |   |         
ATGGAAGAACCTGCTTGCATTATGCTGCTTACTATGGCCATTCTGATTGCCTCCAAGCTATTCTTTCTGCTGCCCATTCCACCCCTATTGCAGTTTCTTGgtaaggttttatttttccccttccttccctgtttctctctttca-----attatcaatcatctgatttata---ttgtctggt-atg--gattggagagcag---------
















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|7925927|gb|AW831953.1|AW831953
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|14258973|gb|BG881881.1|BG881881
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|18729987|gb|BM525615.1|BM525615
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|11273903|gb|BF324292.1|BF324292
EST:     TTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGGTGCAGATTTCTTG                         TG-ATATGCAAGATTTGTCAACATAAGAGATGGGAACGGTGCCACCTCTC
genomic: TTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATT-CTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTC
EST: gi|19452479|gb|BM953889.1|BM953889
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGAT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGAT
EST: gi|213588033|gb|DB971480.1|DB971480
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|213605710|gb|DB972330.1|DB972330
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAG
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAG
EST: gi|6566573|gb|AW234216.1|AW234216
EST:     CTTAAAGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGGAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|21677769|gb|BQ630120.1|BQ630120
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTTGCA-GATTTGTCCACATAAGAGATGGAAACGGTGCCACCCCTC
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTT-GCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTC
EST: gi|209706256|gb|BW668082.1|BW668082
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAGGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|16105121|gb|BI892861.1|BI892861
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|7691680|gb|AW759803.1|AW759803
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|209720551|gb|BW654430.1|BW654430
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGGTGCCACCCCTCT
EST: gi|21994444|gb|BQ785972.1|BQ785972
EST:     CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTG                         GGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGG
genomic: CTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacaca ... gaattgtcagGGGATTTGCAAGATTTGTCAACATAAGAGATGGAAACGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCGGAGAACTTGCTTGCACTATGCCGCTTATTATGGAAATATAGACTGCCTTAAGGTCATTCTTTCTGCTGCTCATTCCACACCTGTTGCAGATTCTTGgttagacacaattctctctctctctcttcatacacacacaggcacacccaatatcgatccaagcatatacaagaatgactggtgatgctaattgttcaatggaattgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT