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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agttcaaattacagtgcaagcaaaagggaatacgaaacaagagacatagaaaaccaaatattattttgaccttgtatgattttctttttgttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTCCTTTATACATTATCTTGGCCAGAAAGAATCTATTGCTCTGAAGTAACTT

Basic information

species Glycine max
transcript GLYMA16G10880.2
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|26269443|gb|CA820506.1|CA820506
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGCTGAAACGCAG                         GATTCATCTGTTATTGCACAATTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|23064172|gb|BU578945.1|BU578945
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|9258778|gb|BE346925.1|BE346925
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|120497234|gb|EH225401.1|EH225401
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACA
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACA
EST: gi|5606958|gb|AI901056.1|AI901056
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|17962913|gb|BM269669.1|BM269669
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|10844582|gb|BF067838.1|BF067838
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGGTATTGCACAGTTGCGGATACGTGACAAT-CGCTTACC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACA-TGCGCTTACC
EST: gi|15288120|gb|BI472011.1|BI472011
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|9204784|gb|BE331008.1|BE331008
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|22523177|gb|BU081988.1|BU081988
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|8670132|gb|BE191239.1|BE191239
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACC
EST: gi|20811436|gb|BQ295914.1|BQ295914
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTC
EST: gi|8670124|gb|BE191231.1|BE191231
EST:     AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAG                         GATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTAC
genomic: AGATTGTTATTCATCCTCAATCTATCATACATTCCTTGGTTGAAACGCAGgtttaaacct ... ttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagaaaaccaaatattattttgaccttgtatgattttctttttgttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTCCTTTATACATTATCTTGGCCAGAAAGAATCTATTGCTCTGAAGTAACTT
                  ttttgac  putative branch site (score: 3)
                               tgattttctttttgtt  putative PPT
     aaaccaaatattattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agttcaaattacagtgcaagcaaaagggaatacgaaacaagagacatagaaaaccaaatattattttgaccttgtatgattttctttttgttcttttcagGATTCATCTGTTATTGCACAGTTGGGGATACCTGACATGCGCTTACCGCTCCTTTATACATTATCTTGGCCAGAAAGAATCTATTGCTCTGAAGTAACTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG