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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctcttcttcttccctccttgctttttgtctcaagttcttctattacaagtcaatcaaggatctaagtttacttggttgatatgtgtatgttagtgaagccagtcggaagcatagaaatttatatggtttaaagctaatggtatttatcagGTACCATCAAATGTTTTAATGGGCATACCAGATAGGAGTCTATCATCAAAGGAAACGGTTTCGTTGACGCCTTTTGGTGATGCTTGTTCAAGAAGAGATC

Basic information

species Glycine max
transcript GLYMA12G06200.1
intron # 7
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|6566897|gb|AW234529.1|AW234529
EST:     ATGTTAAGTTGCTTGTGACTGCTCTAACCCCTCTTCAGAAAGAAACTTCA                         GTACCATCAAATGTTTTAATGGGCATACCAGATAGGAGTCTATCATCAAAG
genomic: ATGTTAAGTTGCTTGTGACTGCTCTAACCCCTCTTCAGAAAGAAACTTCAgtatgctctt ... tatttatcagGTACCATCAAATGTTTTAATGGGCATACCAGATAGGAGTCTATCATCAAAG
EST: gi|193655273|gb|FK600133.1|FK600133
EST:     ATGTTAAGTTGCTTGTGACTGCTCTAACCCCTCTTCAGAAAGAAACTTCA                         GTACCATCAAATGTTTTAATGGGCATACCAGATAGGAGTCTATCATCAAAG
genomic: ATGTTAAGTTGCTTGTGACTGCTCTAACCCCTCTTCAGAAAGAAACTTCAgtatgctctt ... tatttatcagGTACCATCAAATGTTTTAATGGGCATACCAGATAGGAGTCTATCATCAAAG
EST: gi|18730560|gb|BM525946.1|BM525946
EST:     ATGTTAAGTTGCTTGTGACTGCTCTAACCCCTCTTCAGAAAGAAACTTCA                         GTACCATCAAATGTTTTAATGGGCATACCAGAT
genomic: ATGTTAAGTTGCTTGTGACTGCTCTAACCCCTCTTCAGAAAGAAACTTCAgtatgctctt ... tatttatcagGTACCATCAAATGTTTTAATGGGCATACCAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagccagtcggaagcatagaaatttatatggtttaaagctaatggtatttatcagGTACCATCAAATGTTTTAATGGGCATACCAGATAGGAGTCTATCATCAAAGGAAACGGTTTCGTTGACGCCTTTTGGTGATGCTTGTTCAAGAAGAGATC
                                    agctaat  putative branch site (score: 3)
               atagaaatttatatgg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgctcttcttcttccctccttgctttttgtctcaagttcttctattacaagtcaatcaaggatctaagtttacttggttgatatgtgtatgttagtgaagccagtcggaagcatagaaatttatatggtttaaagctaatggtatttatcagGTACCATCAAATGTTTTAATGGGCATACCAGATAGGAGTCTATCATCAAAGGAAACGGTTTCGTTGACGCCTTTTGGTGATGCTTGTTCAAGAAGAGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC