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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacctgtttgttgtcaaaatgtcaactaatggctcttcaccttgtaaccatttatatttatcgtattatctttgtcttccctgtaatttttatggcaatgtttggctactttgcctaaaattatttgcctactttttttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAGCAG

Basic information

species Zea mays
transcript GRMZM2G017086_T03
intron # 8
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|32934266|gb|CF039078.1|CF039078
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|32866635|gb|CF006317.1|CF006317
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|241994792|gb|GR421145.1|GR421145
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|32932531|gb|CF037343.1|CF037343
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|211437528|gb|FK975648.1|FK975648
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|32863109|gb|CF002791.1|CF002791
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|32930082|gb|CF034894.1|CF034894
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|32945380|gb|CF050199.1|CF050199
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|32911302|gb|CF016114.1|CF016114
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|32932473|gb|CF037285.1|CF037285
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|74240015|gb|DT647929.1|DT647929
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCCAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|32931528|gb|CF036340.1|CF036340
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGACCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|67017287|gb|CO446036.1|CO446036
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
EST: gi|50332356|gb|CO527482.1|CO527482
EST:     TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAG                         TGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG
genomic: TGGACACAGTTGGTGTATACGCTTTCTCAAACTCTTACCTCAGATTCAAGgtaacctgtt ... ttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggcaatgtttggctactttgcctaaaattatttgcctactttttttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAGCAG
                    gcctaaa  putative branch site (score: 3)
                            ttatttgcctactttt  CT-rich tract
                                     tactttttttttctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacctgtttgttgtcaaaatgtcaactaatggctcttcaccttgtaaccatttatatttatcgtattatctttgtcttccctgtaatttttatggcaatgtttggctactttgcctaaaattatttgcctactttttttttctatagTGAATCTGCAGCTCTTCCGATGAAGCAACTATTTGGGATAGATCTCGTGAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG