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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttatagttatgactaatgggatgcacatagatgaaggccactaccactttgctggcccatttatcgcttcaaagtttgacaccttggatcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTCCTCAGTCTGAAGCTGGGGAGTCCAATGTGTTTCACCAGGAAAAAGATGC

Basic information

species Zea mays
transcript GRMZM2G047310_T02
intron # 22
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|44901315|gb|CK827860.1|CK827860
EST:     ACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|89252837|gb|DY624623.1|DY624623
EST:     ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|211011730|gb|FL062983.1|FL062983
EST:     ATCTTCAGAATTTCTACGGTCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|67017477|gb|CO446226.1|CO446226
EST:     ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|60346198|gb|DN213171.1|DN213171
EST:     GATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: GATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|60393923|gb|DN226793.1|DN226793
EST:     ACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|74240490|gb|DT648404.1|DT648404
EST:     ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|67014678|gb|CO443427.1|CO443427
EST:     ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|60350996|gb|DN217969.1|DN217969
EST:     TCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: TCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|6465597|gb|AW191192.1|AW191192
EST:     ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|93281335|gb|EB673599.1|EB673599
EST:     ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|60394045|gb|DN226915.1|DN226915
EST:     ACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|71760290|gb|DR958227.1|DR958227
EST:     ATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|149103859|gb|EE289270.2|EE289270
EST:     ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: ATCTTCAGAATTTCTACGATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
EST: gi|14243713|gb|BG841420.2|BG841420
EST:     GATCCAAAGCTAGCAACACAGCATATAAGACTG                         ATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC
genomic: GATCCAAAGCTAGCAACACAGCATATAAGACTGgtagagctgc ... atcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accactttgctggcccatttatcgcttcaaagtttgacaccttggatcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTCCTCAGTCTGAAGCTGGGGAGTCCAATGTGTTTCACCAGGAAAAAGATGC
                               gtttgac  putative branch site (score: 4)
                atttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttttatagttatgactaatgggatgcacatagatgaaggccactaccactttgctggcccatttatcgcttcaaagtttgacaccttggatcaatgcagATGTCGACCGGATTGTCATAACTCCAGCTGGCCCATCAGGCCCATCTTCTCCTCAGTCTGAAGCTGGGGAGTCCAATGTGTTTCACCAGGAAAAAGATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - -ggatgca
- - - - - - - - - - - - - - - - - - - -gccacta
- - - - - - - - - - - - - - - - - - - - - - - - - - -gctggcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgcttca