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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattactctttgaatcatgttccccaattgagccatattcatcttatttacttggtcttatggactcattttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAACGAGTAAGAGGATATTCAATGTCACAATCCAGAAAGATTCAAGTTACAGT

Basic information

species Arabidopsis thaliana
transcript AT1G36380.1
intron # 2
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|86036499|gb|DR332252.1|DR332252
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036510|gb|DR332263.1|DR332263
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTGTTATAGAAGCTTCGATGATCCGAAAACCGAA
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGT-TTATAGAAGCTTCGATGATCCGAAAACCGAA
EST: gi|86036511|gb|DR332264.1|DR332264
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036508|gb|DR332261.1|DR332261
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036496|gb|DR332249.1|DR332249
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|19798347|gb|AU229804.1|AU229804
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036512|gb|DR332265.1|DR332265
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGNAAACCGGAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036506|gb|DR332259.1|DR332259
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036513|gb|DR332266.1|DR332266
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036500|gb|DR332253.1|DR332253
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036509|gb|DR332262.1|DR332262
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036498|gb|DR332251.1|DR332251
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036497|gb|DR332250.1|DR332250
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
EST: gi|86036495|gb|DR332248.1|DR332248
EST:     ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATG                         AAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC
genomic: ATCGCCAAATTCTACAAAAGTATCAGTTCTCAGAATCCTGTTCCCCAATGgtaattactc ... tttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattgagccatattcatcttatttacttggtcttatggactcattttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAACGAGTAAGAGGATATTCAATGTCACAATCCAGAAAGATTCAAGTTACAGT
                                        ctcattttttctc  CT-rich tract
          atattcatcttattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattactctttgaatcatgttccccaattgagccatattcatcttatttacttggtcttatggactcattttttctcagAAATCGCAAGCTCCGAGGTTTATAGAAGCTTCGATGATCCGAAAACCGAACGAGTAAGAGGATATTCAATGTCACAATCCAGAAAGATTCAAGTTACAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT