Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataacagtccaaacaccattttttttcatcattattattattctgaattcgatcacgtagaaaagcactgtcagtcagttgaacgctgatttctgaccaaaatatattaaaaaaaacgaattcgatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCATCAGTTCACCGCGGATCAGCTCGGTGCTCGAAGATGACAGCTTATGACCT

Basic information

species Zea mays
transcript GRMZM2G125850_T02
intron # 5
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|89760567|gb|DY688924.1|DY688924
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|84980703|gb|DW531052.1|DW531052
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTATATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|37424457|gb|CF649961.1|CF649961
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|37422861|gb|CF649146.1|CF649146
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCT
EST: gi|71308218|gb|DR790341.1|DR790341
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|78079570|gb|DV507982.1|DV507982
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|101392562|gb|EB818211.1|EB818211
EST:     AAGCGCTCGGAGCCGCCATCGCCATCCTCGCAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTCCATTAATTGGCGTTTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|149111560|gb|EE190694.2|EE190694
EST:     ACGCGCTGGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|32826781|gb|CD966459.1|CD966459
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACTTTCATCTACTCCCAG                         ACAAAGCAGTAACGCCTTGCATTA
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTA
EST: gi|37424641|gb|CF650053.1|CF650053
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|78079571|gb|DV507983.1|DV507983
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|149086557|gb|EE176100.2|EE176100
EST:     ACGCGCTGGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACCCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|93282359|gb|EB674623.1|EB674623
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|71770113|gb|DR968050.1|DR968050
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|84980097|gb|DW530446.1|DW530446
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTATATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|71308217|gb|DR790340.1|DR790340
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTTTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|76288584|gb|DV028152.1|DV028152
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|27753897|gb|BM378089.1|BM378089
EST:     ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: ACGCGCTCGGAGCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
EST: gi|71427829|gb|DR808879.1|DR808879
EST:     GCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAG                         GCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT
genomic: GCCGCCATCGCCATCCTCGGAACCTTCATCTACTCCCAGgtataacagt ... gatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaacgctgatttctgaccaaaatatattaaaaaaaacgaattcgatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCATCAGTTCACCGCGGATCAGCTCGGTGCTCGAAGATGACAGCTTATGACCT
            ttctgac  putative branch site (score: 2)
          atttctgaccaaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataacagtccaaacaccattttttttcatcattattattattctgaattcgatcacgtagaaaagcactgtcagtcagttgaacgctgatttctgaccaaaatatattaaaaaaaacgaattcgatgtttcagGCAAAGCAGTAACGCCTTGCATTAATTGGCGTCTAGATGGCCTGCCCTCATCAGTTCACCGCGGATCAGCTCGGTGCTCGAAGATGACAGCTTATGACCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG