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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaccttataaactattctcaagtgagaaatgctaataacactaatttgtccgataacagctcactttatgacagaatttaacactccgtttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG

Basic information

species Glycine max
transcript GLYMA20G28720.1
intron # 5
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|192323593|gb|FK017114.1|FK017114
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCA-GAAG                         CA---A-CAAGTAAACCAGTACTTGT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGT
EST: gi|14990114|gb|BI315787.1|BI315787
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|24135390|gb|BU925900.1|BU925900
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGGACTTGTATATCCCAACAGTGGG
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGG
EST: gi|22541388|gb|BU091231.1|BU091231
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAG-A-                         -AGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|192334698|gb|FK025231.1|FK025231
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|15814658|gb|BI786933.1|BI786933
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCC
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCC
EST: gi|58018094|gb|CX704836.1|CX704836
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|192334699|gb|FK025232.1|FK025232
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAG-A-                         -AGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|16343199|gb|BI968794.1|BI968794
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|151407441|gb|EV277256.1|EV277256
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCCAGCAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|6566795|gb|AW234427.1|AW234427
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAG-A-                         -AGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|192306173|gb|FG996815.1|FG996815
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|151406337|gb|EV276152.1|EV276152
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|22541423|gb|BU091266.1|BU091266
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAG-A-                         -AGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
EST: gi|6848389|gb|AW350679.1|AW350679
EST:     ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAG                         --G-CAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT
genomic: ATTGTACTGCTCCTAGATTTATTCATGGATTGATTTCATTTATCAAGAAGgtgcaacttt ... ttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtccgataacagctcactttatgacagaatttaacactccgtttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG
                               atttaac  putative branch site (score: 3)
                                       ctccgttttt  CT-rich tract
                                            tttttaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaccttataaactattctcaagtgagaaatgctaataacactaatttgtccgataacagctcactttatgacagaatttaacactccgtttttaaatagCAGGCAACAAGTAAACCAGTACTTGTATATCCCAACAGTGGGGAGACTTATATCGCTGAGAGCAACCAATGGGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - -caagtga
- - - - - - - - - - - - - gaaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acactcc