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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgcatgtcagttatatattattcttgatttctctgagtataattgtaacacgttttcctttgcttctgatgtccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAAATTGCCAATCGGTGCCTTTGTACATTGCTGGAAGCAGTTCCTCACTTCA

Basic information

species Arabidopsis thaliana
transcript AT1G79150.1
intron # 5
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|116381025|gb|EG423617.1|EG423617
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393421|gb|EG436013.1|EG436013
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393370|gb|EG435962.1|EG435962
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393397|gb|EG435989.1|EG435989
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393384|gb|EG435976.1|EG435976
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCGGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393385|gb|EG435977.1|EG435977
EST:     AAGTGAAGAAAACCCGGTTTTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATTTGCAGAAGTTGATTATATTTGAAAAGCGGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393389|gb|EG435981.1|EG435981
EST:     AAGTGAAGAAAACCCGGTTTTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTAGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116381024|gb|EG423616.1|EG423616
EST:     AAGTGAAGAAAACCCGGTTTTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393383|gb|EG435975.1|EG435975
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATTTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393380|gb|EG435972.1|EG435972
EST:     AAGTGAAGAAAACCCGGTTTTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATTTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393394|gb|EG435986.1|EG435986
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393411|gb|EG436003.1|EG436003
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393373|gb|EG435965.1|EG435965
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAGAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393396|gb|EG435988.1|EG435988
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116381026|gb|EG423618.1|EG423618
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393392|gb|EG435984.1|EG435984
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393391|gb|EG435983.1|EG435983
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393388|gb|EG435980.1|EG435980
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTAGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
EST: gi|116393410|gb|EG436002.1|EG436002
EST:     AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAG                         TCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA
genomic: AAGTGAAGAAAACCCGGTTCTATGAGTCGACTTTATTAAAAGCTTACAAGgtgtgcatgt ... tccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctctgagtataattgtaacacgttttcctttgcttctgatgtccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAAATTGCCAATCGGTGCCTTTGTACATTGCTGGAAGCAGTTCCTCACTTCA
                                           tgtcctt  CT-rich tract
           tataattgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgcatgtcagttatatattattcttgatttctctgagtataattgtaacacgttttcctttgcttctgatgtccttaacagTCATATCTGCAGAAGTTGATTATATTTGAAAAGCAGTCAGTATATAACCAAATTGCCAATCGGTGCCTTTGTACATTGCTGGAAGCAGTTCCTCACTTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG