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

gtgaaactctctctcgatacagaaataaggaattggttgttgaatttgctaatgccgttgaggtttttcgttttttagGAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAGGATCTTCTTCTCCACCGGAGAATTGATTAGGGTTCTTCCTTATACTCGT

Basic information

species Arabidopsis thaliana
transcript AT1G31160.1
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|125196768|gb|EL211722.1|EL211722
EST:     GCAGAGAGAGCTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCG                         GAACTTCTCTACGGTGGG
genomic: GCAGAGAGAGCTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCGgtgaaactct ... cgttttttagGAACTTCTCTACGGTGGG
EST: gi|47830352|gb|CK120036.1|CK120036
EST:     GCTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCG                         GAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAG
genomic: GCTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCGgtgaaactct ... cgttttttagGAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAG
EST: gi|125196099|gb|EL211053.1|EL211053
EST:     GCAGAGAGAGCTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCG                         GAACTTCTCTACGG
genomic: GCAGAGAGAGCTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCGgtgaaactct ... cgttttttagGAACTTCTCTACGG
EST: gi|19877577|gb|AU238408.1|AU238408
EST:     CAGAGAGAGCNTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCG                         GAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAG
genomic: CAGAGAGAGC-TTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCGgtgaaactct ... cgttttttagGAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAG
EST: gi|124824516|gb|EH909382.1|EH909382
EST:     CCTCTATGCTGCTGCTTCG                         GAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAG
genomic: CCTCTATGCTGCTGCTTCGgtgaaactct ... cgttttttagGAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAG
EST: gi|164098398|gb|ES203181.1|ES203181
EST:     GAGAGAGCTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCG                         GAACTTCTCTACGGTGGGAAGGGTTGCTCAATCTGTTCGTGTGACTTCG
genomic: GAGAGAGCTTCAATGGCTGTCACTTCTTCCTCTATGCTGCTGCTTCGgtgaaactct ... cgttttttagGAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataaggaattggttgttgaatttgctaatgccgttgaggtttttcgttttttagGAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAGGATCTTCTTCTCCACCGGAGAATTGATTAGGGTTCTTCCTTATACTCGT
                       tgctaat  putative branch site (score: 2)
                                        tttttcgtttttt  putative PPT
                                        tttttcgtttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaaactctctctcgatacagaaataaggaattggttgttgaatttgctaatgccgttgaggtttttcgttttttagGAACTTCTCTACGGTGGGAAGAGTTGCTCAATCTGTTCGTGTGACTTCGAGGATCTTCTTCTCCACCGGAGAATTGATTAGGGTTCTTCCTTATACTCGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA