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

TTGGCTACGCGTAGCAGGGAGAGCTCCGACTTAAACTCCTTAAGCTGCGCTTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccgaaaagagaaaggtcagatgagagagaacatgcgaggaggagttgaggtgcttac

Basic information

species Zea mays
transcript GRMZM5G805725_T01
intron # 3
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|211023596|gb|FL217584.1|FL217584
EST:     TCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|211414434|gb|FL217540.1|FL217540
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|211021165|gb|FL217567.1|FL217567
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|33103906|gb|CF063866.1|CF063866
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|31405885|gb|CD484617.1|CD484617
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|211416981|gb|FL217550.1|FL217550
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|211026053|gb|FL217603.1|FL217603
EST:     TGCAGCATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCG-CGGCGGCGGCGAGTGA
genomic: TGCAG-ATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|211416983|gb|FL217552.1|FL217552
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGA-GAGCGGCG-CGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|211026058|gb|FL217608.1|FL217608
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGA
EST: gi|32914141|gb|CF018953.1|CF018953
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|211023600|gb|FL217588.1|FL217588
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
EST: gi|211411888|gb|FL217529.1|FL217529
EST:     TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGG                         CCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA
genomic: TTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccg ... aggtgcttacCCATCGCGATGGGGCGAGGGACGAGCGGCGGCGGCGGCGAGTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGCTACGCGTAGCAGGGAGAGCTCCGACTTAAACTCCTTAAGCTGCGCTTGCAGATCCGCCTTGCTCTTCCCCCGCAGCTCGTGCACCTTGATCCGGGctgcgaaccgaaaagagaaaggtcagatgagagagaacatgcgaggaggagttgaggtgcttac

- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC