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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgatatttttttgtgacttatgttatactaattccctagttacataggaatattctatgttttgtgctgatattcctcttgctctttttaacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAATGAACAAAGTTTGGAGACAGTTGGACCTGACAATTGCCACTTTTTACAT

Basic information

species Zea mays
transcript GRMZM2G095239_T03
intron # 1
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|89761715|gb|DY689620.1|DY689620
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|76917260|gb|DV166735.1|DV166735
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|211314546|gb|FL124176.1|FL124176
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGG
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGG
EST: gi|211312520|gb|FL124164.1|FL124164
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|211314544|gb|FL124174.1|FL124174
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|74242104|gb|DT650018.1|DT650018
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|71441110|gb|DR822160.1|DR822160
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|71774575|gb|DR972453.1|DR972453
EST:     ACAACGTGGAGCGGAGATCTTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: ACAACGTGGAGCGGAGATCT-ATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|93017089|gb|EB642609.1|EB642609
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|76287133|gb|DV026701.1|DV026701
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|211312516|gb|FL124160.1|FL124160
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|50338976|gb|CO534102.1|CO534102
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|78105940|gb|DV524358.1|DV524358
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|211312524|gb|FL124168.1|FL124168
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|50329506|gb|CO524632.1|CO524632
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|74244193|gb|DT652107.1|DT652107
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|74242086|gb|DT650000.1|DT650000
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
EST: gi|76280710|gb|DV020278.1|DV020278
EST:     CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTG                         GTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA
genomic: CACAACGTGGAGCGGAGATCTATCCGAACACGGGATTGATTCATCTGGTGgtaagcccta ... aacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggaatattctatgttttgtgctgatattcctcttgctctttttaacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAATGAACAAAGTTTGGAGACAGTTGGACCTGACAATTGCCACTTTTTACAT
                                         ttttaac  putative branch site (score: 2)
                            ttcctcttgctctttt  CT-rich tract
     atattctatgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatatttttttgtgacttatgttatactaattccctagttacataggaatattctatgttttgtgctgatattcctcttgctctttttaacatttcagGTGTTACAACATAGGGTTTTTGATATAGCAATGGGATTACTCATGTATAAATGAACAAAGTTTGGAGACAGTTGGACCTGACAATTGCCACTTTTTACAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA