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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgtcaattatgttgaacacgtgtttgacaacccttatatatagttatgcttttatgccgaaattccaaatgacttaacatgcacggtttgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGATGCGATACATGCAGCTGTAACCCGAGTTGTCTAAAACATGTTGACAACA

Basic information

species Glycine max
transcript GLYMA06G08670.2
intron # 10
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|8285275|gb|BE022834.1|BE022834
EST:     CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGG                         GAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
EST: gi|17963124|gb|BM269877.1|BM269877
EST:     CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGG                         GAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
EST: gi|209719287|gb|BW679816.1|BW679816
EST:     CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGG                         GAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
EST: gi|192307221|gb|FK001221.1|FK001221
EST:     CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATTTGATGG                         GAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTTTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
EST: gi|21995197|gb|BQ786725.1|BQ786725
EST:     CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGG                         GAGGATTAACATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
EST: gi|4293232|gb|AI442018.1|AI442018
EST:     CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGG                         GAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
EST: gi|14011522|gb|BG726444.1|BG726444
EST:     CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGG                         GAGGATTAGCATGGCTGGTC-GAGTTCCAAAACTGTCCCACTTCTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
EST: gi|14011517|gb|BG726439.1|BG726439
EST:     CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGG                         GAGGATTAGCATGGCTGGTC-GAGTTCCAAAACTGTCCCACTTCTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
EST: gi|19053666|gb|BM732333.1|BM732333
EST:     CAAGTTTCCTTCATGACTAAATAGTTCCATATATACATGACATCTGATGG                         GAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA
genomic: CAAGTTTCCTTCATGACTAAAGAGTTCCATATATACATGACATCTGATGGgtaagatact ... tgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgcttttatgccgaaattccaaatgacttaacatgcacggtttgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGATGCGATACATGCAGCTGTAACCCGAGTTGTCTAAAACATGTTGACAACA
                            acttaac  putative branch site (score: 3)
                                           tttgtttt  putative PPT
                                           tttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgtcaattatgttgaacacgtgtttgacaacccttatatatagttatgcttttatgccgaaattccaaatgacttaacatgcacggtttgttttgcagGAGGATTAGCATGGCTGGTCTGAGTTCCAAAACTGTCCCACTTCTGGCGGATGCGATACATGCAGCTGTAACCCGAGTTGTCTAAAACATGTTGACAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - -tgttgaa
- - - - - - - - - - -gtgtttg
- - - - - - - - - - - - - - acaaccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgcac