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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcaaattgccgaattctaatgctaatgcaaatgcaaatgcaacatctcataatcttcatttctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGACGATTTGCTGCATCTGTGGAAGTTGGTTGAGGAAAAAGACGGAGGGCGG

Basic information

species Glycine max
transcript GLYMA20G36050.2
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|22540755|gb|BU090598.1|BU090598
EST:     CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAG                         TTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
genomic: CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAGgtttgcaaat ... ctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
EST: gi|213594449|gb|DB968005.1|DB968005
EST:     CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAG                         TTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
genomic: CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAGgtttgcaaat ... ctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
EST: gi|209701094|gb|BW664196.1|BW664196
EST:     CGCCCTCCCAATCCCCAAAACGACACGGCTTTTACCTACTCCGCCACCAG                         TTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGG
genomic: CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAGgtttgcaaat ... ctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
EST: gi|209725639|gb|BW663128.1|BW663128
EST:     CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAG                         TTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
genomic: CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAGgtttgcaaat ... ctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
EST: gi|209727482|gb|BW669884.1|BW669884
EST:     CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAG                         TTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
genomic: CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAGgtttgcaaat ... ctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
EST: gi|9900212|gb|BE609180.1|BE609180
EST:     CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAG                         TTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA
genomic: CGCCCTCCCAATCCCCAAAACGACACCGCTTTTACCTACTCCGCCACCAGgtttgcaaat ... ctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatgctaatgcaaatgcaaatgcaacatctcataatcttcatttctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGACGATTTGCTGCATCTGTGGAAGTTGGTTGAGGAAAAAGACGGAGGGCGG
                                           ttctaat  putative branch site (score: 2)
                                    tcttcatttct  CT-rich tract
                                      ttcatttctaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgcaaattgccgaattctaatgctaatgcaaatgcaaatgcaacatctcataatcttcatttctaatttcagTTCCTCCGCGCGTGAGAAAGACGCGAGTGGGAGTCCTGTGGTGACGGAAGACGATTTGCTGCATCTGTGGAAGTTGGTTGAGGAAAAAGACGGAGGGCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG