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

GTGACTGGAGACATACATGAAGAAGTTGAGAATCATAACCGCTTGCTTGACAAAGTGgtaagctgaaagtttgatttcatctgtttcagtttgtagatctctatcacatgcttttcttctaagctatttgttgttgtatctctag

Basic information

species Arabidopsis thaliana
transcript AT4G14455.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G14455.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g44930.1 (Oryza sativa), 5'ss of exon 3
GTGACTGGAGACATACATGAAGAAGTTGAGAATCATAACCGCTTGCTTGACAAAGTGgtaagctgaaagtttgatttcatctgtttcagtttgtagatctctatcacatgcttttcttctaagctatttgttgttgtatctctag
 |||| ||||| |||||||||||||| ||||||||||||||  |||| |||| | |||||  || | |   ||       || | |    ||||  |   || ||  |||| ||||||    |||||||                
TTGACAGGAGATATACATGAAGAAGTGGAGAATCATAACCGAATGCTGGACAGAATGgta--ctaatatcctgcaagatgctatcttt-cttgtc-actactctctaatgcatttcttt---gctatttag--------------
















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|19877444|gb|AU238275.1|AU238275
EST:     GAGACATACATGAAGAAGTTGAGAATCATAACCGCTTGCTTGACAAAGTG                         GGGAACAAAATGGACTCCGCGAGGGGGATAATGTCGGGAACGATCAACCGC
genomic: GAGACATACATGAAGAAGTTGAGAATCATAACCGCTTGCTTGACAAAGTGgtaagctgaa ... gtatctctagGGGAACAAAATGGACTCCGCGAGGGGGATAATGTCGGGAACGATCAACCGC
EST: gi|86064864|gb|DR360621.1|DR360621
EST:     GAGACATACATGAAGAAGTTAAGAATCATAACCGCTTGCTTGACAAAGTG                         GGGAACAAAATGGACTCCGCGAGGGG-ATAATGTCGGGAACGATCAACCGC
genomic: GAGACATACATGAAGAAGTTGAGAATCATAACCGCTTGCTTGACAAAGTGgtaagctgaa ... gtatctctagGGGAACAAAATGGACTCCGCGAGGGGGATAATGTCGGGAACGATCAACCGC
EST: gi|86064865|gb|DR360622.1|DR360622
EST:     GAGACATACATGAAGAAGTTAAGAATCATAACCGCTTGCTTGACAAAGTG                         GGGAACAAAATGGACTCCGCGAGGGGGATAATGTCGGGAACGATCAACCGC
genomic: GAGACATACATGAAGAAGTTGAGAATCATAACCGCTTGCTTGACAAAGTGgtaagctgaa ... gtatctctagGGGAACAAAATGGACTCCGCGAGGGGGATAATGTCGGGAACGATCAACCGC
EST: gi|86086356|gb|DR382115.1|DR382115
EST:     GAGACATACATGAAGAAGTTAAGAATCATAACCGCTTGCTTGACAAAGTG                         GGGAACAAAATGGACTCCGCGAGGGGGATAATGTCGGGAACGATCAACCGC
genomic: GAGACATACATGAAGAAGTTGAGAATCATAACCGCTTGCTTGACAAAGTGgtaagctgaa ... gtatctctagGGGAACAAAATGGACTCCGCGAGGGGGATAATGTCGGGAACGATCAACCGC
EST: gi|164095232|gb|ES185573.1|ES185573
EST:     GAATCATAACCGCTTGCTTGACAAAGTG                         GGGAACAAAATGGACTCCGCGAGGGGGGATAATGTCGGGAACGATCAACCG
genomic: GAATCATAACCGCTTGCTTGACAAAGTGgtaagctgaa ... gtatctctagGGGAACAAAATGGACTCCGCGA-GGGGGATAATGTCGGGAACGATCAACCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGACTGGAGACATACATGAAGAAGTTGAGAATCATAACCGCTTGCTTGACAAAGTGgtaagctgaaagtttgatttcatctgtttcagtttgtagatctctatcacatgcttttcttctaagctatttgttgttgtatctctag

- - - - - - - -  TGAAGA
- - - - - - - - -  AAGAAG
- - - - - - - - - - AGAAGT