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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccattttgatttgagcttatgaatctagttgtcttctacgttaatgggtttatgcatgatgattgattggttgattcaagagaattgtacttagaaatggttggaattggttctttttgtgtgcag

Basic information

species Arabidopsis thaliana
transcript AT5G41520.1
intron # 2
splice site 5'
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|124750673|gb|EH840803.1|EH840803
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTACCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCT-CCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAA
EST: gi|164219842|gb|EL985539.1|EL985539
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAA
EST: gi|163970478|gb|EL989863.1|EL989863
EST:     GTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAAGGATTTCAACTTACCACAACATCCTTTG
genomic: GTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCT-AAAAAGGATTTCAACTTACCACAACATCCTTTG
EST: gi|116471696|gb|EG514288.1|EG514288
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|116471744|gb|EG514336.1|EG514336
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|124864864|gb|EH949301.1|EH949301
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTAAGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGT--GTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACA
EST: gi|164152199|gb|EL994072.1|EL994072
EST:     TCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAAGGATTTCAACTTACCACAACATCCTTTG
genomic: TCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCT-AAAAAGGATTTCAACTTACCACAACATCCTTTG
EST: gi|125023008|gb|EL095277.1|EL095277
EST:     AGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: AGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|116406681|gb|EG449273.1|EG449273
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|116406665|gb|EG449257.1|EG449257
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|116471706|gb|EG514298.1|EG514298
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|163976375|gb|EL979175.1|EL979175
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACA
EST: gi|164122362|gb|ES097121.1|ES097121
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCA
EST: gi|164199833|gb|ES002100.1|ES002100
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGC
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGC
EST: gi|47827937|gb|CK117621.1|CK117621
EST:     CCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: CCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|164107587|gb|ES170828.1|ES170828
EST:     TATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: TATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|164201321|gb|ES050450.1|ES050450
EST:     AGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCC
genomic: AGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCC
EST: gi|124926737|gb|EL004535.1|EL004535
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTATCACAAC
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAAC
EST: gi|164022090|gb|ES194591.1|ES194591
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTAGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACAT
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGT-GTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACAT
EST: gi|124804253|gb|EH892168.1|EH892168
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAGG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAA
EST: gi|125013900|gb|EL086169.1|EL086169
EST:     GATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: GATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|116471734|gb|EG514326.1|EG514326
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|47831362|gb|CK121046.1|CK121046
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|124953707|gb|EL028864.1|EL028864
EST:     TATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: TATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|164215746|gb|ES118737.1|ES118737
EST:     CCGCCGTTGAGATCTCCAAGTTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: CCGCCG-TGAGATCTCCAAG-TACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
EST: gi|116476370|gb|EG518962.1|EG518962
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         AGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... ttgtgtgcagAGGGTGTTTTGTTTGCTAAAAAGGATTTCAACTTACCACAACATCCTTTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccattttgatttgagcttatgaatctagttgtcttctacgttaatgggtttatgcatgatgattgattggttgattcaagagaattgtacttagaaatggttggaattggttctttttgtgtgcag

- - - - - - - - - - - - GAGATC