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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatttttctttgctaaacttcaaacaattttgtattgctaaattatgctttcacttatttctatgaaaaatggctcaagtccagtttgtctaatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG

Basic information

species Glycine max
transcript GLYMA13G26260.1
intron # 4
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|58015177|gb|CX701919.1|CX701919
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|58025427|gb|CX712168.1|CX712168
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|298164520|gb|HO014165.1|HO014165
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|151408761|gb|EV278569.1|EV278569
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|298179325|gb|HO027796.1|HO027796
EST:     ATGATGAAAACTTTACAGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|298174291|gb|HO017627.1|HO017627
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|58021016|gb|CX707758.1|CX707758
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|298170313|gb|HO018937.1|HO018937
EST:     ATGATGAAAACTTTACAGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|31561148|gb|CD486986.1|CD486986
EST:     ATGATGAAAACTTTACAGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|58024086|gb|CX710827.1|CX710827
EST:     ATGATGAAAACTTTACGTCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|209704174|gb|BW664792.1|BW664792
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|298180377|gb|HO025578.1|HO025578
EST:     ATGATGAAAACTTTACAGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|193639764|gb|FK590093.1|FK590093
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|192333246|gb|FK026127.1|FK026127
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCAGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|16348066|gb|BI973661.1|BI973661
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|208315861|gb|GE110605.1|GE110605
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|298172532|gb|HO019572.1|HO019572
EST:     ATGATGAAAACTCTACAGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|151393429|gb|EV263304.1|EV263304
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|298183104|gb|HO028367.1|HO028367
EST:     ATGATGAAAACTTTACAGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|163923182|gb|EH038294.1|EH038294
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATG                         GCAAATAGCGGACAAAATACCAATGGCTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|209704173|gb|BW664791.1|BW664791
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|58021929|gb|CX708670.1|CX708670
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
EST: gi|192298333|gb|FG992108.1|FG992108
EST:     ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCAATG                         GCAAATAGCGGACAAAATACCAATGGGTGTCAG
genomic: ATGATGAAAACTTTACGGCCAAACACACTGGTCCTGGCCTTCTGTCGATGgtatgtgttt ... taatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctttcacttatttctatgaaaaatggctcaagtccagtttgtctaatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG
                                          gtctaat  putative branch site (score: 3)
                                       tttgtct  CT-rich tract
         ttatttctatgaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatttttctttgctaaacttcaaacaattttgtattgctaaattatgctttcacttatttctatgaaaaatggctcaagtccagtttgtctaatctgcagGCAAATAGCGGACAAAATACCAATGGCTGTCAG

- - - - - -gctaaac
- - - - - - - - - -tcaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caagtcc