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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagccgaattgtcctttgggttgatttgttcatatcaccatatcgagttggttccagtatttcccatcaacacatgaccaacatttaattctgaaatggagacatgaagtaattttttctaatgtttgttttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG

Basic information

species Zea mays
transcript GRMZM2G337425_T01
intron # 6
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|78109926|gb|DV528341.1|DV528341
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGGTTCTTCAACTGGGGTC-GGCAATGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGG-TCCGGCAATGAG
EST: gi|50332883|gb|CO528009.1|CO528009
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTC
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTC
EST: gi|148928861|gb|EC873779.2|EC873779
EST:     TCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: TCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
EST: gi|78083979|gb|DV512372.1|DV512372
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
EST: gi|18164717|gb|BM334556.1|BM334556
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
EST: gi|91048354|gb|EB158772.1|EB158772
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCCGGCA-TGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCC-GGCAATGAG
EST: gi|71760470|gb|DR958407.1|DR958407
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTTCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
EST: gi|76288198|gb|DV027766.1|DV027766
EST:     TCAA-TATAAAGTTCAGGCACAACAGAGGCATCCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCC
genomic: TCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCC-TGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCC
EST: gi|78083978|gb|DV512371.1|DV512371
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
EST: gi|18166650|gb|BM336489.1|BM336489
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
EST: gi|78085072|gb|DV513465.1|DV513465
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
EST: gi|76288197|gb|DV027765.1|DV027765
EST:     TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: TTCAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
EST: gi|86467324|gb|DY233694.1|DY233694
EST:     CAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAG                         TGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
genomic: CAAATATAAAGTTCAGGCACAACAGAGGCATCCCCCTGCCCGAAAAAGgtaaagccga ... tttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaattctgaaatggagacatgaagtaattttttctaatgtttgttttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG
                                ttctaat  putative branch site (score: 2)
                                        tttgttttcc  CT-rich tract
                         taattttttctaatgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagccgaattgtcctttgggttgatttgttcatatcaccatatcgagttggttccagtatttcccatcaacacatgaccaacatttaattctgaaatggagacatgaagtaattttttctaatgtttgttttccaatagTGATGGGCCATCTCAGCTATCGGTTTCTTCAACTGGGTCCGGCAATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT