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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatattgtttcgggtgctctggaaccttgtttagttatgtaataaattaaatctgacttgtgcattccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGTTCAAAAACACAGGAG

Basic information

species Glycine max
transcript GLYMA11G08380.1
intron # 6
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|192304826|gb|FG997036.1|FG997036
EST:     AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
EST: gi|6072638|gb|AW102025.1|AW102025
EST:     AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGG
genomic: AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCA-G
EST: gi|5606072|gb|AI900170.1|AI900170
EST:     AGCAGTTCTGCATCGACCATTCTGGTGCCGTACCTATTACCACAGCTCAN                         GGAGAAGAGCTTAGGAAGCTGATTTATGCACCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
EST: gi|31309917|gb|CD395120.1|CD395120
EST:     AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
EST: gi|17400451|gb|BM177233.1|BM177233
EST:     AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
EST: gi|58017044|gb|CX703786.1|CX703786
EST:     AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
EST: gi|19054119|gb|BM732786.1|BM732786
EST:     AGCAGTTCTGCATTGACCATCCTGGTGCCGTACCTATTACCACAGCTCAN                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
EST: gi|207842139|gb|GD816725.1|GD816725
EST:     CCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCGCCAGCTTACATTGAATGCAGT
genomic: CCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
EST: gi|58016803|gb|CX703545.1|CX703545
EST:     AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
genomic: AGCAGTTCTGCATCGACCATCCTGGTGCCGTACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
EST: gi|27423497|gb|CA935017.1|CA935017
EST:     TACCTATTACCACAGCTCAG                         GGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT
genomic: TACCTATTACCACAGCTCAGgtgaatattg ... tccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaaccttgtttagttatgtaataaattaaatctgacttgtgcattccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGTTCAAAAACACAGGAG
                              atctgac  putative branch site (score: 3)
                                          cattcccttt  putative PPT
      ttgtttagttatgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaatattgtttcgggtgctctggaaccttgtttagttatgtaataaattaaatctgacttgtgcattccctttaagGGAGAAGAGCTTAGGAAGCTGATTAATGCACCAGCTTACATTGAATGCAGTTCAAAAACACAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT