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

gtgagtatgctaataccccttgttttgtctaaactctaaacctgatacaaaaactaaccggtttcgaataattttggcttagGGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGACGTATCTCTAACTTTGCCGAGGCTATGAACAATATTCCTCCTCCTTTCGGAAACTTCA

Basic information

species Arabidopsis thaliana
transcript AT4G11290.1
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|86045041|gb|DR340796.1|DR340796
EST:     CTTGCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGSTATT                         GGTGGACCGACATGGAACGTTCCAACGGGGCGSAGAGACGGACGTATCTCT
genomic: CTTGCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATTgtgagtatgc ... tttggcttagGGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGACGTATCTCT
EST: gi|124704829|gb|EH796231.1|EH796231
EST:     GCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATT                         GGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGACGTATCT
genomic: GCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATTgtgagtatgc ... tttggcttagGGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGACGTATCT
EST: gi|86045038|gb|DR340793.1|DR340793
EST:     CTTGCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATT                         GCTTAGGGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGACGT
genomic: CTTGCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATTgtgagtatgc ... tttggcttagG----G--TGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGACGT
EST: gi|86045043|gb|DR340798.1|DR340798
EST:     CTTGCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATT                         GGTGGACCGACATGGAACGTTCCAACGG
genomic: CTTGCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATTgtgagtatgc ... tttggcttagGGTGGACCGACATGGAACGTTCCAACGG
EST: gi|86045040|gb|DR340795.1|DR340795
EST:     CTTGCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATT                         GGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGGACGTATCTC
genomic: CTTGCGCTGATATCATCACACTTGCTACTAGAGACTCTATTGTTGCTATTgtgagtatgc ... tttggcttagGGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGG-ACGTATCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaaactctaaacctgatacaaaaactaaccggtttcgaataattttggcttagGGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGACGTATCTCTAACTTTGCCGAGGCTATGAACAATATTCCTCCTCCTTTCGGAAACTTCA
                        aactaac  putative branch site (score: 1)
                                  tttcgaataatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtatgctaataccccttgttttgtctaaactctaaacctgatacaaaaactaaccggtttcgaataattttggcttagGGTGGACCGACATGGAACGTTCCAACGGGGCGCAGAGACGGACGTATCTCTAACTTTGCCGAGGCTATGAACAATATTCCTCCTCCTTTCGGAAACTTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC