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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagattccattcagatccttcaacagagaagaagcagaagctatctatcacagtcttcttcagcttctccttgtttgtctaaattccagttgaacgctgtgatcttgcagGCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGCTGAACAAGATCGATTTCACTGACCAAGAAGTTCCAACAATAGTCACCGTTG

Basic information

species Zea mays
transcript GRMZM2G043141_T02
intron # 3
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|211457928|gb|FL459110.1|FL459110
EST:     TCAGGGCACGCCTCAAGAACGGCATCCTCGATYTGGGGTTAACGATCCAG                         GCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTYTGCTGCGTCAGGCTG
genomic: TCAGGGCACGCCTCAAGAACGGCATCCTCGATCTGGGGTTAACGATCCAGgtcagattcc ... gatcttgcagGCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGCTG
EST: gi|113701141|gb|EE678645.1|EE678645
EST:     TCAGGGCACGCCTCAAGAACGGCATCCTCGATCTGGGGTTAACGATCCAG                         GCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCTTCTGCTGCGTCAGGCTG
genomic: TCAGGGCACGCCTCAAGAACGGCATCCTCGATCTGGGGTTAACGATCCAGgtcagattcc ... gatcttgcagGCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGCTG
EST: gi|71447004|gb|DR828054.1|DR828054
EST:     TCAGGGCACGCCTCAAGAACGGCATCCTCGATCTGGGGTTAACGATCCAG                         GCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGCTG
genomic: TCAGGGCACGCCTCAAGAACGGCATCCTCGATCTGGGGTTAACGATCCAGgtcagattcc ... gatcttgcagGCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGCTG
EST: gi|6952640|gb|AW424708.1|AW424708
EST:     TCAGGGCACGCCTCAAGAACGGCATCCTCGATCTGGGGTTAACGATCCAG                         GCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGTTG
genomic: TCAGGGCACGCCTCAAGAACGGCATCCTCGATCTGGGGTTAACGATCCAGgtcagattcc ... gatcttgcagGCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttcagcttctccttgtttgtctaaattccagttgaacgctgtgatcttgcagGCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGCTGAACAAGATCGATTTCACTGACCAAGAAGTTCCAACAATAGTCACCGTTG
                     gtctaaa  putative branch site (score: 3)
                      tctaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagattccattcagatccttcaacagagaagaagcagaagctatctatcacagtcttcttcagcttctccttgtttgtctaaattccagttgaacgctgtgatcttgcagGCCCAGAAGCAGTCGGAGCTCCCTGAGCAGGTCCTCTGCTGCGTCAGGCTGAACAAGATCGATTTCACTGACCAAGAAGTTCCAACAATAGTCACCGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT