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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTGATCCTCATGCCAGCAAGCTTGTGGTAAACTCAGATACTCCTCAGGAGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAGgtgatatttctcacatctgcttctctttttatgccctaacatctttccttaatactccctcttgcgtttctgaaaaaaaacatctttcctcttaatataa...

Basic information

species Zea mays
transcript GRMZM2G180575_T01
intron # 6
splice site 5'
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|22819646|gb|BU499736.1|BU499736
EST:     AGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAG                         GAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTACTTGTTAATGATA
genomic: AGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAGgtgatatttc ... tgctctgcagGAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTACTTGTTAATGATA
EST: gi|160481330|gb|EY254264.1|EY254264
EST:     AGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAG                         GAGAGTGATATCAAGTGGGCTTCTCGCTGGGA-ACCTAC
genomic: AGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAGgtgatatttc ... tgctctgcagGAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTAC
EST: gi|87155848|gb|DY400637.1|DY400637
EST:     AGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAG                         GAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTACTTGTTAATGATA
genomic: AGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAGgtgatatttc ... tgctctgcagGAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTACTTGTTAATGATA
EST: gi|5928814|gb|AW056106.1|AW056106
EST:     ATCATATTTACCTATGATGTAGGCTTCGAG                         GAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTACTTGTTAATGATA
genomic: ATCATATTTACCTATGATGTAGGCTTCGAGgtgatatttc ... tgctctgcagGAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTACTTGTTAATGATA
EST: gi|78117912|gb|DV536299.1|DV536299
EST:     AGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAG                         GAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTACTTGTTAATGATA
genomic: AGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAGgtgatatttc ... tgctctgcagGAGAGTGATATCAAGTGGGCTTCTCGCTGGGACACCTACTTGTTAATGATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTGATCCTCATGCCAGCAAGCTTGTGGTAAACTCAGATACTCCTCAGGAGGTTGAAGCCGGGAAGGAAATCATATTTACCTATGATGTAGGCTTCGAGgtgatatttctcacatctgcttctctttttatgccctaacatctttccttaatactccctcttgcgtttctgaaaaaaaacatctttcctcttaatataa

- - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaaa