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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttccccggcattttagttataatattttgttattttacatgcatagattatcagatcacaatatcaatctcttaaagtaacatttttctatattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAATGATGCACGTCAAGGATTTTTAACTGACGGACCAATGGAAGATATTTGC

Basic information

species Glycine max
transcript GLYMA19G35710.1
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|192301012|gb|FG990112.1|FG990112
EST:     AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCAT                         GAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAG-CGGTAGCCGATGAA
genomic: AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCATgtaagtcctc ... tattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA
EST: gi|254335061|gb|GR844846.1|GR844846
EST:     AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCAT                         GAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA
genomic: AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCATgtaagtcctc ... tattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA
EST: gi|7589208|gb|AW704987.1|AW704987
EST:     AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCAT                         GAGCTTGTATGCNGATTACATAGTGGAGAGCTTGAGGCGG
genomic: AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCATgtaagtcctc ... tattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGG
EST: gi|254335060|gb|GR844845.1|GR844845
EST:     AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCAT                         GAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGA
genomic: AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCATgtaagtcctc ... tattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGA
EST: gi|151398751|gb|EV268622.1|EV268622
EST:     AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCAT                         GAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA
genomic: AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCATgtaagtcctc ... tattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA
EST: gi|15000402|gb|BI321216.1|BI321216
EST:     AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCAT                         GAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA
genomic: AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCATgtaagtcctc ... tattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA
EST: gi|120533838|gb|EH261971.1|EH261971
EST:     AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCAT                         GAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA
genomic: AACGACTTTTTGCCTGCCTCAGCTGCTTTTGAAGCGGTTAAGCGATCCATgtaagtcctc ... tattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattatcagatcacaatatcaatctcttaaagtaacatttttctatattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAATGATGCACGTCAAGGATTTTTAACTGACGGACCAATGGAAGATATTTGC
                             aagtaac  putative branch site (score: 2)
                                     tttttctat  CT-rich tract
                          ttaaagtaacattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttccccggcattttagttataatattttgttattttacatgcatagattatcagatcacaatatcaatctcttaaagtaacatttttctatattgagaagGAGCTTGTATGCGGATTACATAGTGGAGAGCTTGAGGCGGTAGCCGATGAATGATGCACGTCAAGGATTTTTAACTGACGGACCAATGGAAGATATTTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- -cccggca
- - - - - - - - - - - - - - - - - - acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatctc