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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atattcaagttcaaattatactgcttgaagtagaaagatatggttggaaagatatttctccaataattgatggcttttcattattctgcttaatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGTGATGGTTACTGGAG

Basic information

species Glycine max
transcript GLYMA09G04910.1
intron # 14
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|58021862|gb|CX708603.1|CX708603
EST:     AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCT                         CTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
genomic: AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCTgtgagttcat ... taatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
EST: gi|208133389|gb|GD929096.1|GD929096
EST:     AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCT                         CTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
genomic: AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCTgtgagttcat ... taatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
EST: gi|193634880|gb|FK583941.1|FK583941
EST:     AATATT-AAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCT                         CTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
genomic: AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCTgtgagttcat ... taatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
EST: gi|21888738|gb|BQ741951.1|BQ741951
EST:     AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCT                         CTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
genomic: AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCTgtgagttcat ... taatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
EST: gi|10236381|gb|BE805269.1|BE805269
EST:     AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCT                         CTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
genomic: AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCTgtgagttcat ... taatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
EST: gi|193460952|gb|FK426699.1|FK426699
EST:     AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCT                         CTCTACAACAGAAAACTATC
genomic: AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCTgtgagttcat ... taatgtgcagCTCT-CAACAGAAAACTATC
EST: gi|254313963|gb|GR831592.1|GR831592
EST:     ATATTAAAAAGTTCAACCTTCCAAAAGGAGAATTTTTGC-ACAACATGCT                         CTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAG
genomic: ATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTT-GCCACAATATGCTgtgagttcat ... taatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAG
EST: gi|208324693|gb|GE125770.1|GE125770
EST:     AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCT                         CTCTCAACAGAAAACTAT
genomic: AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCTgtgagttcat ... taatgtgcagCTCTCAACAGAAAACTAT
EST: gi|207777106|gb|GD747893.1|GD747893
EST:     AATATTAAAAAGTTCACCCTTCCAAAAGGGGAATTTTGCCACAATATGCT                         CTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT
genomic: AATATTAAAAAGTTCACCCTTCCAAAAGGAGAATTTTGCCACAATATGCTgtgagttcat ... taatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaaagatatttctccaataattgatggcttttcattattctgcttaatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGTGATGGTTACTGGAG
                                          gcttaat  putative branch site (score: 4)
                                      ttctgctt  CT-rich tract
                             ttttcattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atattcaagttcaaattatactgcttgaagtagaaagatatggttggaaagatatttctccaataattgatggcttttcattattctgcttaatgtgcagCTCTCAACAGAAAACTATCATCAATGCAATGGCTGTCAATGAGGAGGGTGTGATGGTTACTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - tactgct
- - - - - - - - - - - - - - - - - - - - tggttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgatgg