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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagctatcatggattgatatacttgtccaatctctttgctttaagctaatacagctttatataagtctcataacattgtattttctgcagAATCAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAGTCAGACACCTTTATTATAGGATTAGATCAAATGGACCACTTGCATATAATA

Basic information

species Glycine max
transcript GLYMA19G43630.1
intron # 6
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|58015124|gb|CX701866.1|CX701866
EST:     TGCTTTACTTTTCTGCTGCTATCATTCA-TTACAAAAG                         AATCAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAGT
genomic: TGCTTTACTCTTCTGCTGCTATCATTCATTTAC-AAAGgtcagctatc ... ttttctgcagAATCAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAGT
EST: gi|58017534|gb|CX704276.1|CX704276
EST:     CATTTACAAAG                         AATCAAGGGTGCTTCAGTACAC-TTGCAGAAGCTCACTATGTGATCAAGTC
genomic: CATTTACAAAGgtcagctatc ... ttttctgcagAATCAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAGTC
EST: gi|58021467|gb|CX708208.1|CX708208
EST:     GCTATCATTCATTTAC-AAG                         -ATNCCAAGGGTACTTCAGTACAC-TTGCAGAAGCTCACTATGTGATCAAG
genomic: GCTATCATTCATTTACAAAGgtcagctatc ... ttttctgcagAAT--CAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAG
EST: gi|254340000|gb|GR858125.1|GR858125
EST:     TGCTACCATTCTGTGCTTTACTCTTCTGCTGCTATCATTCATTTACAAAG                         AATCAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAGTC
genomic: TGCTACCATTCTGTGCTTTACTCTTCTGCTGCTATCATTCATTTACAAAGgtcagctatc ... ttttctgcagAATCAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctttaagctaatacagctttatataagtctcataacattgtattttctgcagAATCAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAGTCAGACACCTTTATTATAGGATTAGATCAAATGGACCACTTGCATATAATA
                                tcataac  putative branch site (score: 2)
                                           tattttct  putative PPT
                                  ataacattgtatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagctatcatggattgatatacttgtccaatctctttgctttaagctaatacagctttatataagtctcataacattgtattttctgcagAATCAAGGGTACTTCAGTACACTTTGCAGAAGCTCACTATGTGATCAAGTCAGACACCTTTATTATAGGATTAGATCAAATGGACCACTTGCATATAATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA