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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatttttattcgtgattatgtatgaccatgtcagtggatataattgcttacctcataaatggcatatgcgacttgaatgtaatttcttcttttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTGCCAG

Basic information

species Zea mays
transcript GRMZM2G035150_T02
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|78092884|gb|DV521258.1|DV521258
EST:     ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGT
genomic: ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGT
EST: gi|74235678|gb|DT643592.1|DT643592
EST:     TGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
genomic: TGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
EST: gi|78092883|gb|DV521257.1|DV521257
EST:     AAGCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
genomic: AAGCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
EST: gi|71427954|gb|DR809004.1|DR809004
EST:     ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGGTAAAGGAGATGGCAACTG
genomic: ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
EST: gi|76289426|gb|DV028994.1|DV028994
EST:     CATCAAAGGCTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
genomic: CATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
EST: gi|71427953|gb|DR809003.1|DR809003
EST:     GCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
genomic: GCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
EST: gi|74235679|gb|DT643593.1|DT643593
EST:     ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGGCA-CT
genomic: ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGG-CAACT
EST: gi|86466720|gb|DY233090.1|DY233090
EST:     ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
genomic: ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
EST: gi|71427180|gb|DR808230.1|DR808230
EST:     GCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
genomic: GCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
EST: gi|76291810|gb|DV031378.1|DV031378
EST:     ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAG                         GTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG
genomic: ATTCCTTCTGTTGACGAAGCCATTTCAGATCATCAAAGACTTCTTGACAGgtaaaccaaa ... tttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttacctcataaatggcatatgcgacttgaatgtaatttcttcttttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTGCCAG
 tgcttac  putative branch site (score: 2)
                                  taatttcttcttttcc  putative PPT
                                  taatttcttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatttttattcgtgattatgtatgaccatgtcagtggatataattgcttacctcataaatggcatatgcgacttgaatgtaatttcttcttttccaaaagGTTGGTGGTGTACGGTTTGGTTGATCTCAAGGTTAAAGGAGATGGCAACTGCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG