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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atactgtttgtttagattgtcatattttcattattccccctttttttggaataagttttaactatgctctgcttatggttattttgcttactttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAACAGCAGCTGTTAATTTTGATAGTGAAGCTCCAACAAT

Basic information

species Glycine max
transcript GLYMA15G17330.1
intron # 2
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|192303106|gb|FG994224.1|FG994224
EST:     GCTCGCAAAGCCTCCATCTTTAATCTTCTTCTCCCTCTTCAACCACGCAG                         GTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTACAGCAAAAAC
genomic: GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAGgtttctattt ... ctttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
EST: gi|16342657|gb|BI968252.1|BI968252
EST:     GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAG                         GTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
genomic: GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAGgtttctattt ... ctttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
EST: gi|16283453|gb|BI945558.1|BI945558
EST:     GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAG                         GTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
genomic: GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAGgtttctattt ... ctttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
EST: gi|16349218|gb|BI974813.1|BI974813
EST:     GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAG                         GTTGGTCTC---TACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
genomic: GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAGgtttctattt ... ctttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
EST: gi|298184576|gb|HO029789.1|HO029789
EST:     GCTCGCAAAACCTCCAACTTTAATCTTCTTCTCCCTCTCCAACCACGCAG                         GTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
genomic: GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAGgtttctattt ... ctttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
EST: gi|31560970|gb|CD486808.1|CD486808
EST:     GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCGACCACGCAG                         GTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
genomic: GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAGgtttctattt ... ctttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
EST: gi|18692831|gb|BM521679.1|BM521679
EST:     GCTCGCAAAGCCTCCATCTTTAATCTTCTTCTCCCTCTTCAACCACGCAG                         GTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTACAGCAAAAAC
genomic: GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAGgtttctattt ... ctttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
EST: gi|298168753|gb|HO009683.1|HO009683
EST:     GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAG                         GTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC
genomic: GCTCGCAAAGCCTCCAACTTTAATCTTCTTCTCCCTCTTCAACCACGCAGgtttctattt ... ctttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggaataagttttaactatgctctgcttatggttattttgcttactttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAACAGCAGCTGTTAATTTTGATAGTGAAGCTCCAACAAT
                                       tgcttac  putative branch site (score: 2)
                                    ttttgcttacttttt  CT-rich tract
     ataagttttaactat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atactgtttgtttagattgtcatattttcattattccccctttttttggaataagttttaactatgctctgcttatggttattttgcttactttttacagGTTGGTCTCTAGTACCTGTGCTGTGAACAATGAAGAGGCTGCAGCAAAAACAGCAGCTGTTAATTTTGATAGTGAAGCTCCAACAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - tgtttgt
- - - - - - - - - - - - - - - - -ttccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctgct