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'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttagtctttatctttgagacatttttgtttttcttatcattagtacacattatgtgtctttgtgcataataaacatacttacattcaattacctgtcatcgtcaagtgtatgcattacctgtgtttgtcctttcacatgcttaacgatttccggctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAAGTTGGGAGACAAGGTATTGCTTGTTTTAGCTGAAGAAAACGAGGAACCT

Basic information

species Arabidopsis thaliana
transcript AT2G23390.1
intron # 8
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|125203248|gb|EL218202.1|EL218202
EST:     CACAACTGATAACAA                         ATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAA
genomic: CACAACTGATAACAAgtttagtctt ... ctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAA
EST: gi|125228196|gb|EL242281.1|EL242281
EST:     AGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA                         ATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCG
genomic: AGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAAgtttagtctt ... ctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCG
EST: gi|125235342|gb|EL249427.1|EL249427
EST:     CACAACTGATAACAA                         ATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAA
genomic: CACAACTGATAACAAgtttagtctt ... ctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcattacctgtgtttgtcctttcacatgcttaacgatttccggctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAAGTTGGGAGACAAGGTATTGCTTGTTTTAGCTGAAGAAAACGAGGAACCT
                                           ggctaat  putative branch site (score: 3)
                                              taatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttagtctttatctttgagacatttttgtttttcttatcattagtacacattatgtgtctttgtgcataataaacatacttacattcaattacctgtcatcgtcaagtgtatgcattacctgtgtttgtcctttcacatgcttaacgatttccggctaattttagATGGGGCACACCTTATCTCACAAGGGATTTCTTTCACGACATGGCATCGAAGTTGGGAGACAAGGTATTGCTTGTTTTAGCTGAAGAAAACGAGGAACCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA