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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtattatcatttcacttctttcttctctcttcatttatccttttttattttttatttcgattctaattctctctctctctctctctcttttttttttaattaGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAAGATAA

Basic information

species Glycine max
transcript GLYMA18G47960.1
intron # 1
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|298188014|gb|HO031971.1|HO031971
EST:     TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTAT                         GGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAA
genomic: TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTATggtattatca ... tttttaattaGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAA
EST: gi|192305183|gb|FG993949.1|FG993949
EST:     TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTAT                         GGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAA
genomic: TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTATggtattatca ... tttttaattaGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAA
EST: gi|16347967|gb|BI973562.1|BI973562
EST:     TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTAT                         GGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAA
genomic: TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTATggtattatca ... tttttaattaGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAA
EST: gi|10845691|gb|BF071167.1|BF071167
EST:     TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTAT                         GGCGATTTCACTTTGATGTCTANAGAAGCAACCTAAGCGCCAAGAGATTGA
genomic: TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTATggtattatca ... tttttaattaGGCGATTTCACTTTGATGTCTA-AGAAGCAACCTAAGCGCCAAGAGATTGA
EST: gi|209725122|gb|BW663062.1|BW663062
EST:     TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTAT                         GGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAA
genomic: TTTGCATCTTCCTTTTCTTCATCTTTCTTTACAAGTTCCTCATCGCTTATggtattatca ... tttttaattaGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttatttcgattctaattctctctctctctctctctcttttttttttaattaGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAAGATAA
             ttctaat  putative branch site (score: 2)
             ttctaattctctctct  CT-rich tract
                                  tctctctttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtattatcatttcacttctttcttctctcttcatttatccttttttattttttatttcgattctaattctctctctctctctctctcttttttttttaattaGGCGATTTCACTTTGATGTCTAAGAAGCAACCTAAGCGCCAAGAGATTGAAGATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA