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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtaccttacctttctcattctctcttcttctcttctcttctatcaccgttgactcacgactaatcacatattacttattaaacttgtaatcaaagtttattcaaacaaactctgctgcctttgacttttatgttcactctgctttatatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTACCAGACTGACGAGAGAAGAAAAAAGATTAGCAAATTTAAGGAATCAGCCT

Basic information

species Glycine max
transcript GLYMA16G12080.3
intron # 1
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|10238953|gb|BE807841.1|BE807841
EST:     CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAG                         AAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
genomic: CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAGgttcgtacct ... tatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
EST: gi|193675477|gb|FK616509.1|FK616509
EST:     CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAG                         AAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
genomic: CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAGgttcgtacct ... tatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
EST: gi|193417921|gb|FK384313.1|FK384313
EST:     TTTCTCGACCGATTCATATTCGAG                         AAAGTGGCTAGACGATTGATTTTTTGGAAAGGGGCATGCGGTCGCTGGACT
genomic: TTTCTCGACCGATTCATATTCGAGgttcgtacct ... tatatgacagAAAGTGGCTAGACGATTGA-TTTTTGGAAAGGGGCATGCGG-CGCTGGACT
EST: gi|7685255|gb|AW755903.1|AW755903
EST:     CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAG                         AAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
genomic: CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAGgttcgtacct ... tatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
EST: gi|23063878|gb|BU578660.1|BU578660
EST:     CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGATTGATTCATATTCGAG                         AAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
genomic: CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAGgttcgtacct ... tatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
EST: gi|192324720|gb|FK016851.1|FK016851
EST:     CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAG                         AAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
genomic: CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAGgttcgtacct ... tatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
EST: gi|298185707|gb|HO030920.1|HO030920
EST:     CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAG                         AAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC
genomic: CTCTCTTCTTCCCCTCCCTTCGCTTCTTTCTCGACCGATTCATATTCGAGgttcgtacct ... tatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaacaaactctgctgcctttgacttttatgttcactctgctttatatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTACCAGACTGACGAGAGAAGAAAAAAGATTAGCAAATTTAAGGAATCAGCCT
                 ctttgac  putative branch site (score: 4)
                                         tttatatatga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgtaccttacctttctcattctctcttcttctcttctcttctatcaccgttgactcacgactaatcacatattacttattaaacttgtaatcaaagtttattcaaacaaactctgctgcctttgacttttatgttcactctgctttatatatgacagAAAGTGGCTAGACGATTGATTTTTGGAAAGGGGCATGCGGCGCTGGACTACCAGACTGACGAGAGAAGAAAAAAGATTAGCAAATTTAAGGAATCAGCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA