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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatggtagcttttcacaaacagatatctgagagttcctttctctgttatttttcctctaaatcttcactgcaaattgtaaaacatttatacatgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTGGCAAGATTGTTTAATTCCATACTAATTTGCTTCTTCTGGATCTCACTTC

Basic information

species Glycine max
transcript GLYMA16G21210.1
intron # 4
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|15663684|gb|BI701055.1|BI701055
EST:     GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTG                         CGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
genomic: GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTGgtatggttac ... catgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
EST: gi|58017706|gb|CX704448.1|CX704448
EST:     GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTG                         CGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
genomic: GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTGgtatggttac ... catgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
EST: gi|58020944|gb|CX707686.1|CX707686
EST:     GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTG                         CGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
genomic: GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTGgtatggttac ... catgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
EST: gi|254322711|gb|GR835533.1|GR835533
EST:     GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTG                         CGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
genomic: GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTGgtatggttac ... catgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
EST: gi|19270063|gb|BM886319.1|BM886319
EST:     GCTGAGACACACATGGTGGAGGCTTAGGGTGTGATCTTCTGAAAACTTTG                         CGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
genomic: GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTGgtatggttac ... catgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
EST: gi|254322710|gb|GR835532.1|GR835532
EST:     GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTG                         CGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
genomic: GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTGgtatggttac ... catgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
EST: gi|58014388|gb|CX701130.1|CX701130
EST:     GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTG                         CGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG
genomic: GCTGAGACACACATGGTGAAGGCTTAGGGTGTGATCTTCTGAAAACTTTGgtatggttac ... catgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttttcctctaaatcttcactgcaaattgtaaaacatttatacatgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTGGCAAGATTGTTTAATTCCATACTAATTTGCTTCTTCTGGATCTCACTTC
         ctctaaa  putative branch site (score: 3)
                          aaattgtaaaacattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatggtagcttttcacaaacagatatctgagagttcctttctctgttatttttcctctaaatcttcactgcaaattgtaaaacatttatacatgtcccagCGTTTCAGTTTTTGTCATGGAGATGACGACCACGGGGCTAAAGAAGAGTTGGCAAGATTGTTTAATTCCATACTAATTTGCTTCTTCTGGATCTCACTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - -cacaaac
- - - - - - - - - - - - - - - - gttcctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cactgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtaaaac