Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaggaggcccttgtctgttgcatttctgatacaatgatgtctttgagttgaacgggttttcatgtgtttgtgttttccccccttaaaaaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAACTCCCAGTTGAGTGATGATGGATCATACTCTGATGCCCAGGACAGCTATG

Basic information

species Zea mays
transcript GRMZM2G363460_T01
intron # 9
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|71312716|gb|DR792886.1|DR792886
EST:     ACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAG                         CCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: ACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
EST: gi|78075299|gb|DV503733.1|DV503733
EST:     ATAGGTCTTTTGGCAGTAAG                         CCATGGGAGATGCATTTGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: ATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
EST: gi|76912797|gb|DV164885.1|DV164885
EST:     CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAG                         CCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
EST: gi|31355282|gb|CD439639.1|CD439639
EST:     C--C-GATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAG                         CCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
EST: gi|31354170|gb|CD438527.1|CD438527
EST:     CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAG                         CCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
EST: gi|60344992|gb|DN211965.1|DN211965
EST:     AGCAGCCGATGTCCCCTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAG                         CCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: AGCAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
EST: gi|76281031|gb|DV020599.1|DV020599
EST:     -AGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAG                         CCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
EST: gi|78109255|gb|DV527671.1|DV527671
EST:     CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAG                         CCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
EST: gi|110517843|gb|EE022430.1|EE022430
EST:     -AGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAG                         CCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC
genomic: CAGCCGATGTCCACTGCACAACGAAGCGATAGGTCTTCTGGCAGTAAGgtgagaggag ... aaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgagttgaacgggttttcatgtgtttgtgttttccccccttaaaaaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAACTCCCAGTTGAGTGATGATGGATCATACTCTGATGCCCAGGACAGCTATG
                                        ttaaaaaaattgca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagaggaggcccttgtctgttgcatttctgatacaatgatgtctttgagttgaacgggttttcatgtgtttgtgttttccccccttaaaaaaattgcagCCATGGGAGATGCATTCGTATTCACAACAGAGGCCTGGTTATGGATCCAACTCCCAGTTGAGTGATGATGGATCATACTCTGATGCCCAGGACAGCTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA