Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcatcaatacataaaacaaaatagtgaatatttgtaaagttgttagaaacttatagggccagttctttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGTCGCTGGGTTGGCTACTGTATCGATCACATCGAAAATGTAGTAGAGCAAC

Basic information

species Arabidopsis thaliana
transcript AT3G54530.1
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|116440437|gb|EG483029.1|EG483029
EST:     AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAA                         TCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
genomic: AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAAgtaagcatca ... ttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
EST: gi|116440433|gb|EG483025.1|EG483025
EST:     AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAA                         TCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
genomic: AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAAgtaagcatca ... ttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
EST: gi|116440439|gb|EG483031.1|EG483031
EST:     AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAA                         TCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
genomic: AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAAgtaagcatca ... ttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
EST: gi|116440446|gb|EG483038.1|EG483038
EST:     AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAA                         TCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
genomic: AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAAgtaagcatca ... ttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
EST: gi|116440440|gb|EG483032.1|EG483032
EST:     AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAA                         TCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
genomic: AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAAgtaagcatca ... ttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
EST: gi|116440442|gb|EG483034.1|EG483034
EST:     AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAA                         TCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
genomic: AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAAgtaagcatca ... ttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
EST: gi|116440444|gb|EG483036.1|EG483036
EST:     AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAA                         TCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT
genomic: AGCTCGAGCAAGATTATCAACACACCTACGAGAAGTACACAGAACTACAAgtaagcatca ... ttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtgaatatttgtaaagttgttagaaacttatagggccagttctttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGTCGCTGGGTTGGCTACTGTATCGATCACATCGAAAATGTAGTAGAGCAAC
                                         ttctttat  CT-rich tract
     aatatttgtaaagtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcatcaatacataaaacaaaatagtgaatatttgtaaagttgttagaaacttatagggccagttctttatggacagTCAGACAGGTATATGTACTACATTGCTTTTCAACGTCCAGGACATCACAGTCGCTGGGTTGGCTACTGTATCGATCACATCGAAAATGTAGTAGAGCAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA