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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttaagcttacttgctgttgacaaccttgtgtaatatttagtgttttctttttgagttgaactgtttagtaaatcttttgtaacttcacatcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAATTTTGGGATCCGTCTCCTAATGAT

Basic information

species Glycine max
transcript GLYMA08G03630.1
intron # 2
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|192308725|gb|FG999764.1|FG999764
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|213599245|gb|DB960013.1|DB960013
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|151406483|gb|EV276298.1|EV276298
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|4305349|gb|AI443749.1|AI443749
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|42723245|gb|CK769144.1|CK769144
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|8827592|gb|BE211322.1|BE211322
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|19452471|gb|BM953881.1|BM953881
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|298172446|gb|HO019486.1|HO019486
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|298183475|gb|HO028688.1|HO028688
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|22524785|gb|BU083596.1|BU083596
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|298169339|gb|HO020699.1|HO020699
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|21887095|gb|BQ740308.1|BQ740308
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|208167960|gb|GD966046.1|GD966046
EST:     ATCCAGCTTATATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|192332519|gb|FK025624.1|FK025624
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|298171588|gb|HO021180.1|HO021180
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTGCGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|193672594|gb|FK615912.1|FK615912
EST:     TTGCACTATTCTACGATAAAGTGTTC-ACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: TTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|192308360|gb|FK001346.1|FK001346
EST:     ATCCAGCTTACATTGCACTATTCTAAGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
EST: gi|22522837|gb|BU081648.1|BU081648
EST:     ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAG                         GTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT
genomic: ATCCAGCTTACATTGCACTATTCTACGATAAAGTGTTCTACGGTTTTCAGgtgagaattc ... tcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttttgagttgaactgtttagtaaatcttttgtaacttcacatcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAATTTTGGGATCCGTCTCCTAATGAT
                                ttgtaac  putative branch site (score: 2)
                   tttagtaaatctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttaagcttacttgctgttgacaaccttgtgtaatatttagtgttttctttttgagttgaactgtttagtaaatcttttgtaacttcacatcatctgtagGTTTGGAGGTTGTTCACAAACTTATTTTTCCTTGGACCATTCTCTATCAATTTTGGGATCCGTCTCCTAATGAT

- - - - - - tgctgtt
- - - - - - - - - - - - ccttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acttcac