Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaattttgaattttctgattcctctttattttcttagtatttgtgttttttaaaaaatctgacggtggagaattgaaattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGGTTGCTTGTTCGGTGAAGCAATTCTCCGGCGAACCGAATTGATGTTTGAA

Basic information

species Arabidopsis thaliana
transcript AT4G33985.1
intron # 1
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|86028208|gb|DR323961.1|DR323961
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
EST: gi|86028202|gb|DR323955.1|DR323955
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
EST: gi|86028206|gb|DR323959.1|DR323959
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
EST: gi|86028199|gb|DR323952.1|DR323952
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
EST: gi|86028207|gb|DR323960.1|DR323960
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGC
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGC
EST: gi|86028205|gb|DR323958.1|DR323958
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCMGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTG
EST: gi|86028198|gb|DR323951.1|DR323951
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
EST: gi|86028197|gb|DR323950.1|DR323950
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGGCTCAGGTG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGG-CTCAGGTG
EST: gi|47829688|gb|CK119372.1|CK119372
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
EST: gi|86028200|gb|DR323953.1|DR323953
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
EST: gi|86028204|gb|DR323957.1|DR323957
EST:     CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAG                         GTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG
genomic: CGCATCGGAAGGTGAAAACAGCAATTCCAGCACGACGATCGTTGATCAAGgtatgtgaat ... aattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttagtatttgtgttttttaaaaaatctgacggtggagaattgaaattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGGTTGCTTGTTCGGTGAAGCAATTCTCCGGCGAACCGAATTGATGTTTGAA
                         atctgac  putative branch site (score: 3)
      tatttgtgttttttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtgaattttgaattttctgattcctctttattttcttagtatttgtgttttttaaaaaatctgacggtggagaattgaaattgaaaagGTGATGATCCGGAGACGATGAAGCTGAGGTTGAAGCAATGGGCTCAGGTGGTTGCTTGTTCGGTGAAGCAATTCTCCGGCGAACCGAATTGATGTTTGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA