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

TAGTGTGCTCGAAGTTATGGAATCAGCTTTTAAGGGTTCTGTGTCACCTCAGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatgatttcatttcattgatatccaaacagttttgcaaaagtatgcttaaataactctctttatcccccttagaaatatccgttgtacattgaa...

Basic information

species Arabidopsis thaliana
transcript AT2G39810.1
intron # 4
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|116394342|gb|EG436934.1|EG436934
EST:     AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAG                         CATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
genomic: AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatg ... tttatttcagCATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
EST: gi|116394352|gb|EG436944.1|EG436944
EST:     AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAG                         CATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
genomic: AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatg ... tttatttcagCATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
EST: gi|116394351|gb|EG436943.1|EG436943
EST:     AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATT-GTAAAACAAAGCAG                         CATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
genomic: AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatg ... tttatttcagCATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
EST: gi|116394338|gb|EG436930.1|EG436930
EST:     AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAG                         CATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
genomic: AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatg ... tttatttcagCATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
EST: gi|116394335|gb|EG436927.1|EG436927
EST:     AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAG                         CATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
genomic: AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatg ... tttatttcagCATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
EST: gi|116394353|gb|EG436945.1|EG436945
EST:     AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGCAAAACAAAGCAG                         CATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
genomic: AGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatg ... tttatttcagCATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
EST: gi|116394341|gb|EG436933.1|EG436933
EST:     AAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAG                         CATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
genomic: AAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatg ... tttatttcagCATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGTG
EST: gi|116394344|gb|EG436936.1|EG436936
EST:     GCTTCAAGATGTGCAGACGCTGAGAGAGAACATT-GT-AAACAAAAGCAG                         CATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGT
genomic: GCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAAC-AAAGCAGgtcagccatg ... tttatttcagCATTTGGACATAATGGTCTGGTGCATCAGACATGGATTTCTGGATGATGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGTGTGCTCGAAGTTATGGAATCAGCTTTTAAGGGTTCTGTGTCACCTCAGCTTCAAGATGTGCAGACGCTGAGAGAGAACATTGGTAAAACAAAGCAGgtcagccatgatttcatttcattgatatccaaacagttttgcaaaagtatgcttaaataactctctttatcccccttagaaatatccgttgtacattgaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaagta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atccccct