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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgataacaaattcccactaaacataactctgcagatctgagcatccctaaacccactgaaaaggcgatttttaattttctttcttggttgagtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGACCGAGAGGAATAGCACGCTAGGTCTTCTAACTGTTTACCCAGTAAAGTC

Basic information

species Glycine max
transcript GLYMA05G34400.1
intron # 8
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|208299515|gb|GE098398.1|GE098398
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAG                         GTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
EST: gi|18693007|gb|BM521855.1|BM521855
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAG                         GTATTGCAATGGAACATTTTCTCTGGAC
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAATGGAACATTTTCTCTGGAC
EST: gi|193668090|gb|FK610662.1|FK610662
EST:     ATGCTGTTGAGAAGTTTAGCGACAG                         GTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
genomic: ATGCTGTTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
EST: gi|22927496|gb|BU544635.1|BU544635
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAG                         GTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
EST: gi|208281011|gb|GE076799.1|GE076799
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAG                         GTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
EST: gi|207837815|gb|GD810751.1|GD810751
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAG                         GTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
EST: gi|193435042|gb|FK400242.1|FK400242
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAG                         GTATTGCAATGGAACATTTTCTCTGGACTAAA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAA
EST: gi|151406090|gb|EV275905.1|EV275905
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAG                         GTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGTTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctaaacccactgaaaaggcgatttttaattttctttcttggttgagtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGACCGAGAGGAATAGCACGCTAGGTCTTCTAACTGTTTACCCAGTAAAGTC
                       ttttaat  putative branch site (score: 3)
                     atttttaattttcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgataacaaattcccactaaacataactctgcagatctgagcatccctaaacccactgaaaaggcgatttttaattttctttcttggttgagtatggcagGTATTGCAATGGAACATTTTCTCTGGACTAAAGAAAACCAAGCATGTGCGACCGAGAGGAATAGCACGCTAGGTCTTCTAACTGTTTACCCAGTAAAGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - ttcccac
- - - - - - - - - - - - - ctctgca
- - - - - - - - - - - - - - - - - - - - gcatccc
- - - - - - - - - - - - - - - - - - - - - - - - -aacccac