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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattaacttaataagattgtatgcttgaaaaatttatttgttgttaatcaatgataagctctatgttctttattgatgagtaatattttggttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGACCTGGCATTCGCTTTTTCCAGCTATAT

Basic information

species Glycine max
transcript GLYMA08G18750.3
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|20498513|gb|BQ273443.1|BQ273443
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|20498726|gb|BQ273656.1|BQ273656
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|120533762|gb|EH261895.1|EH261895
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|213596244|gb|DB960176.1|DB960176
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|209719071|gb|BW659374.1|BW659374
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|16995820|gb|BM085192.1|BM085192
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|209703121|gb|BW664657.1|BW664657
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|15199663|gb|BI423946.1|BI423946
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|20207665|gb|BQ133754.1|BQ133754
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|15286497|gb|BI470388.1|BI470388
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|120534301|gb|EH262434.1|EH262434
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|12688969|gb|BG155305.1|BG155305
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|13481886|gb|BG511229.1|BG511229
EST:     TGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: TGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|11413020|gb|BF425040.1|BF425040
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|23052894|gb|BU577385.1|BU577385
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|120533257|gb|EH261390.1|EH261390
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|120534568|gb|EH262701.1|EH262701
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|20448798|gb|BQ252922.1|BQ252922
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|120534652|gb|EH262785.1|EH262785
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|6724446|gb|AW308845.1|AW308845
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|120529200|gb|EH257334.1|EH257334
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|9204621|gb|BE330845.1|BE330845
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|10847326|gb|BF070031.1|BF070031
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTNTGTCTTCATGGGCTACTTNCAAGTGT-GAAGAGGTAGCTTCAACAGG
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTT-CAAGTGTTGAAGAGGTAGCTTCAACAGG
EST: gi|5607072|gb|AI901170.1|AI901170
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTCTGTCTTCATGGGCTACTTCAAGTGTTGATGAAGTAGCTCCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|10233637|gb|BE802525.1|BE802525
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|120529512|gb|EH257646.1|EH257646
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
EST: gi|209725760|gb|BW659891.1|BW659891
EST:     GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATG                         ACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA
genomic: GAGAATATGCAACAGCAAGAGCTGCATCTGCTGCTGGAACAATCATGgtacttctct ... gttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcaatgataagctctatgttctttattgatgagtaatattttggttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGACCTGGCATTCGCTTTTTCCAGCTATAT
                         tattgat  putative branch site (score: 3)
                                              ttctttc  putative PPT
                       tttattgatgagtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattaacttaataagattgtatgcttgaaaaatttatttgttgttaatcaatgataagctctatgttctttattgatgagtaatattttggttctttcagACTTTGTCTTCATGGGCTACTTCAAGTGTTGAAGAGGTAGCTTCAACAGGACCTGGCATTCGCTTTTTCCAGCTATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - gtatgct
- - - - - - - - - - - - - gaaaaat
- - - - - - - - - - - - - - - - - - - tgttgtt