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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttcttcaatcacttagttcaatctcagtttccagttgttgcttctaccgcaagaaactgataacaagtcaattgaattgttgtcatttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTACGCAGCAGTCACAGTCCAGCTTCCGGGAGGAGAACGCGTGCCGTTCCTCT

Basic information

species Arabidopsis thaliana
transcript AT3G50820.1
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|124965744|gb|EL039905.1|EL039905
EST:     GAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: GAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|124996447|gb|EL068716.1|EL068716
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAA
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAA
EST: gi|124981556|gb|EL054418.1|EL054418
EST:     CGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTAGAAGTTCAAGGAAGAAGATGGTATCGATTA
genomic: CGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGT-GAAGTTCAAGGAAGAAGATGGTATCGATTA
EST: gi|125227337|gb|EL241422.1|EL241422
EST:     ACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: ACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|125189997|gb|EL204951.1|EL204951
EST:     CACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGAATTA
genomic: CACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGA-TTA
EST: gi|125173679|gb|EL195064.1|EL195064
EST:     CATGACCCGTTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGC
genomic: CATGACCCG-TCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGC
EST: gi|125087792|gb|EL146794.1|EL146794
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCG
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCG
EST: gi|124973269|gb|EL046913.1|EL046913
EST:     ATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGGAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: ATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|125104366|gb|EL158462.1|EL158462
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTACAAGACGGAAGCGTGAAGTTCAAGGAAGAAGAT
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTT-CA-GACGGAAGCGTGAAGTTCAAGGAAGAAGAT
EST: gi|124978194|gb|EL051419.1|EL051419
EST:     TTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: TTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|125234429|gb|EL248514.1|EL248514
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAA
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAA
EST: gi|47831580|gb|CK121264.1|CK121264
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|124824256|gb|EH909122.1|EH909122
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAG
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAG
EST: gi|124805088|gb|EH892545.1|EH892545
EST:     TTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: TTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|124834675|gb|EH919114.1|EH919114
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGG
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGG
EST: gi|124883499|gb|EH962401.1|EH962401
EST:     CATGACCCGTCTCTACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTA
genomic: CATGACCCGTCTC-ACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTA
EST: gi|86082680|gb|DR378439.1|DR378439
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|86079346|gb|DR375103.1|DR375103
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCCAGACGKAAGCGTGAAGTTCMMGGMAGAAGAATGGTATCGATT
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTT-CAGACGGAAGCGTGAAGTTCAAGGAAGAAG-ATGGTATCGATT
EST: gi|125269600|gb|EL283685.1|EL283685
EST:     CACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: CACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|125274478|gb|EL288563.1|EL288563
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGT
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGT
EST: gi|125036326|gb|EL108595.1|EL108595
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAG
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAG
EST: gi|124812643|gb|EH897509.1|EH897509
EST:     GGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
genomic: GGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTAC
EST: gi|125215840|gb|EL229923.1|EL229923
EST:     TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGG
genomic: TCATGACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGG
EST: gi|125202527|gb|EL217481.1|EL217481
EST:     ATGACCCGTCTCACTTTACTACACTCGATGAGATCGAAGGACCCTTCGAG                         GTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCG
genomic: ATGACCCGTCTCAC-TTAC-ACACTCGATGAGATCGAAGGACCCTTCGAGgtttttcttc ... atttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttctaccgcaagaaactgataacaagtcaattgaattgttgtcatttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTACGCAGCAGTCACAGTCCAGCTTCCGGGAGGAGAACGCGTGCCGTTCCTCT
                  tgataac  putative branch site (score: 2)
                              aattgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttcttcaatcacttagttcaatctcagtttccagttgttgcttctaccgcaagaaactgataacaagtcaattgaattgttgtcatttgatcagGTTGGTTCAGACGGAAGCGTGAAGTTCAAGGAAGAAGATGGTATCGATTACGCAGCAGTCACAGTCCAGCTTCCGGGAGGAGAACGCGTGCCGTTCCTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA