Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattagaaccaatttaaaaaattgaatttcataattttaatgcaatcacgtgtgatttttttaagatatatttaatttttaatttagcttccttgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTCTACAAACAAGTCAAAATTGGGAACCCCTTGGAGAAGGGGACTCTAGTTG

Basic information

species Glycine max
transcript GLYMA09G08150.1
intron # 9
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|193628428|gb|FK578498.1|FK578498
EST:     TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTG                         TTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
genomic: TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
EST: gi|193671020|gb|FK608298.1|FK608298
EST:     TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTG                         TTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
genomic: TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
EST: gi|193541518|gb|FK499200.1|FK499200
EST:     TTGCTGCTGTGGGTACTACTGGTCAGCGGTG-ACAACTTGTCGTAGACTG                         TTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
genomic: TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
EST: gi|193630538|gb|FK580885.1|FK580885
EST:     CTGGTCAGCGGTGTACAACTTGTCGTAGACTG                         TTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
genomic: CTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
EST: gi|208080318|gb|GD878914.1|GD878914
EST:     TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTG                         TTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
genomic: TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
EST: gi|254341577|gb|GR852714.1|GR852714
EST:     TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTG                         TTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTG
genomic: TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTT-CTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTG
EST: gi|193666137|gb|FK611762.1|FK611762
EST:     TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTG                         TTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
genomic: TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
EST: gi|208321376|gb|GE119513.1|GE119513
EST:     TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTG                         TTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
genomic: TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
EST: gi|19452651|gb|BM954061.1|BM954061
EST:     TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTG                         TTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC
genomic: TTGCTGCTGTGGGTACTACTGGTCAGCGGTGTACAACTTGTCGTAGACTGgtattagaac ... tgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgtgatttttttaagatatatttaatttttaatttagcttccttgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTCTACAAACAAGTCAAAATTGGGAACCCCTTGGAGAAGGGGACTCTAGTTG
                            ttttaat  putative branch site (score: 3)
                                       cttccttgt  putative PPT
      atttttttaagatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattagaaccaatttaaaaaattgaatttcataattttaatgcaatcacgtgtgatttttttaagatatatttaatttttaatttagcttccttgtactgcagTTTCTGCATGAAAGTATTTATACAGACGTACTAGACCAACTTGTTGAAGTCTACAAACAAGTCAAAATTGGGAACCCCTTGGAGAAGGGGACTCTAGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA