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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcatgtctgcgtgacagttctcattattttcccttttccctcattgaactgttctggttggcaattgatttttttttcttattctgtaatatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAAATGAAAACGTGAAGAAGAGTCAATATGCTGTCAGAGGTGAATTATACCT

Basic information

species Glycine max
transcript GLYMA02G04320.3
intron # 1
splice site 3'
intron type U2

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|20497810|gb|BQ272740.1|BQ272740
EST:     AAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: AAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|11412198|gb|BF424209.1|BF424209
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|209697330|gb|BW655571.1|BW655571
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|27426578|gb|CA938098.1|CA938098
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|209717041|gb|BW654404.1|BW654404
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|213615316|gb|DB963510.1|DB963510
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|209714239|gb|BW665539.1|BW665539
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|209706985|gb|BW683248.1|BW683248
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|209708293|gb|BW683883.1|BW683883
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|213591634|gb|DB968158.1|DB968158
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|213607636|gb|DB958655.1|DB958655
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|15284749|gb|BI468640.1|BI468640
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|19052738|gb|BM731405.1|BM731405
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|15288232|gb|BI472123.1|BI472123
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|11412830|gb|BF424841.1|BF424841
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|20498718|gb|BQ273648.1|BQ273648
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|6134078|gb|AW132407.1|AW132407
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|213591868|gb|DB973419.1|DB973419
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|12773440|gb|BG238367.1|BG238367
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|209723920|gb|BW675240.1|BW675240
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|120531769|gb|EH259902.1|EH259902
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
EST: gi|213587584|gb|DB969725.1|DB969725
EST:     ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAG                         AATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA
genomic: ATCCACGATACACTCTACGCTTCACAAAACCTTCAAACCCAATTCCACAGgtaacaatca ... tatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaactgttctggttggcaattgatttttttttcttattctgtaatatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAAATGAAAACGTGAAGAAGAGTCAATATGCTGTCAGAGGTGAATTATACCT
                  aattgat  putative branch site (score: 4)
                  aattgatttttttttc  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggcatgtctgcgtgacagttctcattattttcccttttccctcattgaactgttctggttggcaattgatttttttttcttattctgtaatatctgcaagAATTCTTCTGCTTCACCATGCCACCAAAGCCTTTAGACTATGGGTCAATAAATGAAAACGTGAAGAAGAGTCAATATGCTGTCAGAGGTGAATTATACCT

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