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

gtaagcaaatttagtccaattgattagaatttgtataagatatggtagggtggcttaatggttaggctatatttaatgatgtagTTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTATGTTCGTCAGAACATCGATATATCGAGGAAGAGAATGGATGTGGCTGCTCTTGAT

Basic information

species Arabidopsis thaliana
transcript AT2G27680.1
intron # 2
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|125301963|gb|EL316048.1|EL316048
EST:     GTCCACCGGAGTACTTGGAGAAGATTAAAGG                         TTTGACTAAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTATGTTC
genomic: GTCCACCGGAGTACTTGGAGAAGATTAAAGGgtaagcaaat ... aatgatgtagTTTGAC-AAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTATGTTC
EST: gi|125106710|gb|EL160099.1|EL160099
EST:     AATAGAGTTCGTCGAGAGCGTCCACCGGAGTACTTGGAGAAGATTAAAGG                         TTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTAT
genomic: AATAGAGTTCGTCGAGAGCGTCCACCGGAGTACTTGGAGAAGATTAAAGGgtaagcaaat ... aatgatgtagTTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTAT
EST: gi|124762001|gb|EH852131.1|EH852131
EST:     CTTGGAGAAGATTAAAGG                         TTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTATGTTCG
genomic: CTTGGAGAAGATTAAAGGgtaagcaaat ... aatgatgtagTTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTATGTTCG
EST: gi|125202068|gb|EL217022.1|EL217022
EST:     AATAGAGTTCGTCGAGAGCGTCCACCGGAGTACTTGGAGAAGATTAAAGG                         TTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAG
genomic: AATAGAGTTCGTCGAGAGCGTCCACCGGAGTACTTGGAGAAGATTAAAGGgtaagcaaat ... aatgatgtagTTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtataagatatggtagggtggcttaatggttaggctatatttaatgatgtagTTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTATGTTCGTCAGAACATCGATATATCGAGGAAGAGAATGGATGTGGCTGCTCTTGAT
                                         atttaat  putative branch site (score: 4)
                                      tatatttaatgatgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcaaatttagtccaattgattagaatttgtataagatatggtagggtggcttaatggttaggctatatttaatgatgtagTTTGACAAAATGGGTGCCTCCTCCAATAAAGATGACAAGTAGCTATGTTCGTCAGAACATCGATATATCGAGGAAGAGAATGGATGTGGCTGCTCTTGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT