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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacaatttcgataatgaataattcatctagtagtaatatttactataagaaaacaaatgtttctttattataataagaccaaattactcttttttcgtctgtcctaaagtttttttttaatattctttcataaaacattcttgaaataaataacaacttaagttataaaaacaaaaatatatggttgcagGTGGCACAAGTGCTGTTGACGCTGCCGTATTCGTTCTCGCAGTTGGGAATGTTATCAGGAATATTGCTTCAAATATTCTATGGGTTAATGGGATCTTGGA

Basic information

species Arabidopsis thaliana
transcript AT5G01240.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G01240.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 1
gtaagtacaatttcgataatgaataattcatctagtagtaatatttactataagaaaacaaatgtttctttattata-ataagaccaaattactcttttttcgtctgtcctaaagtttttttttaatattctttcataaaacattcttgaaataaataacaacttaagttataaaaacaaaaatatatggttgcagGTGGCACAAGTGCTGTTGACGCTGCCGTATTCGTTCTCGCAGTTGGGAATGTTATCAGGAATATTGCTTCAAATATTCTATGGGTTAATGGGATCTTGGA
                                                                           ||   | |  ||    || ||   | || | |   |          |  | ||   |  |||  |  ||         |        | |   |                |  |   ||||||||| || |||||| ||||||||||||| |||||||||||| |||| ||| | || ||  |  |||| ||  | |  || ||  | |||||    ||||
--------------------------------------------------------------------------gtacgcacgggcacggcacgctagctgcggccggtgtg--------ctagagtaacgtcgcatggaggatcgcgcgctcacgcggtggcgtgtttcg-----------gcgttcgtccgcagGTGGCGCAGGTGCTGCTGACGCTGCCGTACTCGTTCTCGCAGCTGGGCATGCTCTCCGGCGTGCTGCTGCAGGTCTGGTACGGCCTCATGGGCAGCTGGA
















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|86080532|gb|DR376289.1|DR376289
EST:     GGCATGGCGGGTCCGCTTGGGACGCCTGGTTTAGCTGTGCATCAAATCAA                         GTGGCACAAGTGCTGTTGACGCTGCCGTATTCGTTCTCGCAGTTGGGAATG
genomic: GGCATGGCGGGTCCGCTTGGGACGCCTGGTTTAGCTGTGCATCAAATCAAgtaagtacaa ... atggttgcagGTGGCACAAGTGCTGTTGACGCTGCCGTATTCGTTCTCGCAGTTGGGAATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcttgaaataaataacaacttaagttataaaaacaaaaatatatggttgcagGTGGCACAAGTGCTGTTGACGCTGCCGTATTCGTTCTCGCAGTTGGGAATGTTATCAGGAATATTGCTTCAAATATTCTATGGGTTAATGGGATCTTGGA
            aaataac  putative branch site (score: 2)
        aaataaataacaactt  TA-rich tract