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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaccagtaccttcacttcattcctaacaaaactactttcagtgagactgttttgttctatcttttattgcatgaatgacttactcttctgagataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGACCTGGAGCTGCAGCTGCAGCTGCACCGCGTGTCTGAAGCCTTCAAGCAG

Basic information

species Arabidopsis thaliana
transcript AT2G40510.1
intron # 4
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|86036205|gb|DR331958.1|DR331958
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|164150679|gb|ES028320.1|ES028320
EST:     TCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: TCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|47830262|gb|CK119946.1|CK119946
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|86036211|gb|DR331964.1|DR331964
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|86036204|gb|DR331957.1|DR331957
EST:     GCACCAACCGCAGG-TTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAA
EST: gi|163975743|gb|ES044801.1|ES044801
EST:     CGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTTGA
genomic: CGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|124731402|gb|EH822804.1|EH822804
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCA
EST: gi|86036208|gb|DR331961.1|DR331961
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|125068983|gb|EL134920.1|EL134920
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAG
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAG
EST: gi|125300191|gb|EL314276.1|EL314276
EST:     CCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: CCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|86036206|gb|DR331959.1|DR331959
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|47828170|gb|CK117854.1|CK117854
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGGAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|86036202|gb|DR331955.1|DR331955
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGNCAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|125046362|gb|EL118631.1|EL118631
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAA
EST: gi|47831156|gb|CK120840.1|CK120840
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|86036210|gb|DR331963.1|DR331963
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|86036200|gb|DR331953.1|DR331953
EST:     GCACCAACCGCAGGGTNCNNNCTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAANNNTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|86078577|gb|DR374334.1|DR374334
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|47831171|gb|CK120855.1|CK120855
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|86036209|gb|DR331962.1|DR331962
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|124833341|gb|EH917780.1|EH917780
EST:     CACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: CACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
EST: gi|164227908|gb|ES126353.1|ES126353
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAA
EST: gi|86036201|gb|DR331954.1|DR331954
EST:     GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAG                         GAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA
genomic: GCACCAACCGCAGGGTTCGTACTCCTCCACCTCGTTTCGCCAGACGCAAGgtaatatctc ... agataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgttttgttctatcttttattgcatgaatgacttactcttctgagataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGACCTGGAGCTGCAGCTGCAGCTGCACCGCGTGTCTGAAGCCTTCAAGCAG
                               gacttac  putative branch site (score: 2)
         ttctatcttttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaccagtaccttcacttcattcctaacaaaactactttcagtgagactgttttgttctatcttttattgcatgaatgacttactcttctgagataatcagGAGGATACTCCCAAGCCTGGGCAACCAGGACAGGCACCTCGTCCTGCTGGACCTGGAGCTGCAGCTGCAGCTGCACCGCGTGTCTGAAGCCTTCAAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - aacaaaa
- - - - - - - - - - - - - - - - - ctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcttct