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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatttcttttcagaatagttgcatttatgtgttgtgcgtatccttcagaggttttgaaatcattgacccttgtcttatgttcatcacatttctcaatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGCAATGGTTGGTGCAGTCAAACCTCTTGACAACAGCTGCTACACTCTTTGC

Basic information

species Glycine max
transcript GLYMA14G12380.2
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|20498860|gb|BQ273790.1|BQ273790
EST:     AAACTTTACGACCTGCAGATAATCAGGCAAACAGAG                         GGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCGCCTCAGCCGC
genomic: AAACTTTACGACCTGCAGATAATCAGGCAAACAGAGgtgatttctt ... aatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
EST: gi|192320474|gb|FK012332.1|FK012332
EST:     GACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAG                         GGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
genomic: GACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAGgtgatttctt ... aatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
EST: gi|207824896|gb|GD794704.1|GD794704
EST:     AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAG                         GGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
genomic: AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAGgtgatttctt ... aatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
EST: gi|58018057|gb|CX704799.1|CX704799
EST:     AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAG                         GGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACTTCAGCCGC
genomic: AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAGgtgatttctt ... aatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
EST: gi|19935240|gb|BQ080270.1|BQ080270
EST:     AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAG                         GGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAA
genomic: AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAGgtgatttctt ... aatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAA
EST: gi|192320475|gb|FK012333.1|FK012333
EST:     AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAG                         GGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
genomic: AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAGgtgatttctt ... aatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
EST: gi|19346612|gb|BM891492.1|BM891492
EST:     AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAG                         GGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC
genomic: AGACAACCCATCACAAACTTTACGACCTGCAGATAATCAGGCAAACAGAGgtgatttctt ... aatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttttgaaatcattgacccttgtcttatgttcatcacatttctcaatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGCAATGGTTGGTGCAGTCAAACCTCTTGACAACAGCTGCTACACTCTTTGC
           cattgac  putative branch site (score: 3)
                                       tttctca  putative PPT
       aaatcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatttcttttcagaatagttgcatttatgtgttgtgcgtatccttcagaggttttgaaatcattgacccttgtcttatgttcatcacatttctcaatgattcagGGTATCTTTTTGAGGGCCACCTTACGGTTGATCCTGAACCACCTCAGCCGCAATGGTTGGTGCAGTCAAACCTCTTGACAACAGCTGCTACACTCTTTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT