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

...gtttgtcatgttcagatctcaaaatgcaaagttacacagcaaattaattatattttgataagaattaagtaattaacggctgagatgtatgacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTTTGTGGGAGATTCACTAAGCAACAATATGTGGGTGTCACTAAGTTGCATG

Basic information

species Arabidopsis thaliana
transcript AT1G78710.1
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|116417805|gb|EG460397.1|EG460397
EST:     TGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: TGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417659|gb|EG460251.1|EG460251
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417593|gb|EG460185.1|EG460185
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417560|gb|EG460152.1|EG460152
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417759|gb|EG460351.1|EG460351
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417604|gb|EG460196.1|EG460196
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417770|gb|EG460362.1|EG460362
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417783|gb|EG460375.1|EG460375
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417671|gb|EG460263.1|EG460263
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417626|gb|EG460218.1|EG460218
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417737|gb|EG460329.1|EG460329
EST:     TGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGGCGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: TGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417615|gb|EG460207.1|EG460207
EST:     AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: AAGAACTACCTTCATTACCGATGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417726|gb|EG460318.1|EG460318
EST:     TGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGGCGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: TGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT
EST: gi|116417537|gb|EG460129.1|EG460129
EST:     TGGCAACCCACCGGATGTGACATCCCAAG                         ATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGNNNNNNNTACTGTT
genomic: TGGCAACCCACCGGATGTGACATCCCAAGgtgatattca ... gacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattatattttgataagaattaagtaattaacggctgagatgtatgacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTTTGTGGGAGATTCACTAAGCAACAATATGTGGGTGTCACTAAGTTGCATG
                         aattaac  putative branch site (score: 2)
     tattttgataagaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtcatgttcagatctcaaaatgcaaagttacacagcaaattaattatattttgataagaattaagtaattaacggctgagatgtatgacgttgcagATTCAACGGACGAGATTTCTTAACAAGATTCAAAGGGAAAAAAATACTGTTTGTGGGAGATTCACTAAGCAACAATATGTGGGTGTCACTAAGTTGCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - -ctcaaaa
- - - - - - - - - - - - - - - - - - cagcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataagaa