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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgaatctttttatggtgtaatgacaaagtatgtatgaatctctaaggatctttactttgtagattctgataaagtgtggtgggttttcttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCTACTATCCCCATTACTGGAACTGGTATCAACCCAGCTAGAAGCTTTGGTG

Basic information

species Arabidopsis thaliana
transcript AT4G35100.2
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|124907712|gb|EH981792.1|EH981792
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTT
EST: gi|124829521|gb|EH914112.1|EH914112
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCA
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCA
EST: gi|124707992|gb|EH799394.1|EH799394
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTT
EST: gi|125156676|gb|EL186166.1|EL186166
EST:     CTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGC
genomic: CTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagG-TTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGC
EST: gi|125262339|gb|EL276424.1|EL276424
EST:     ACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: ACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|125019422|gb|EL091691.1|EL091691
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTT
EST: gi|116411606|gb|EG454198.1|EG454198
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|124957534|gb|EL032360.1|EL032360
EST:     TTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCAAACATCCCC                         GTTTTGGCTCCACTTCCAATTGGAT
genomic: TTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCA--CATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGAT
EST: gi|124767181|gb|EH857311.1|EH857311
EST:     CAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTAAGTTCATGGTGCATTTGG
genomic: CAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGT--GTTCATGGTGCATTTGG
EST: gi|86031961|gb|DR327714.1|DR327714
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|124752693|gb|EH842823.1|EH842823
EST:     CTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: CTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|86031968|gb|DR327721.1|DR327721
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGRCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|125117911|gb|EL166845.1|EL166845
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGAT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGAT
EST: gi|164214613|gb|ES179312.1|ES179312
EST:     CCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: CCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|116409602|gb|EG452194.1|EG452194
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|86031959|gb|DR327712.1|DR327712
EST:     AAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: AAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|124994944|gb|EL067213.1|EL067213
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCATTTGGATTTGCTGTGTTCATGG
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGG
EST: gi|125298732|gb|EL312817.1|EL312817
EST:     TGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|86031969|gb|DR327722.1|DR327722
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|125071997|gb|EL136845.1|EL136845
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTG
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTG
EST: gi|125138027|gb|EL177628.1|EL177628
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGT
EST: gi|125292583|gb|EL306668.1|EL306668
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAA
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAA
EST: gi|125194355|gb|EL209309.1|EL209309
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGT
EST: gi|125227671|gb|EL241756.1|EL241756
EST:     TCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTG
genomic: TCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTG
EST: gi|124938918|gb|EL015505.1|EL015505
EST:     CTCGTGACTCTCACATCCCC                         GTTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGC
genomic: CTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagG-TTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGC
EST: gi|86031966|gb|DR327719.1|DR327719
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGAATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|125278114|gb|EL292199.1|EL292199
EST:     ACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: ACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|125201218|gb|EL216172.1|EL216172
EST:     TGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|125116091|gb|EL165769.1|EL165769
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCA
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCA
EST: gi|125318890|gb|EL332975.1|EL332975
EST:     -TTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGG
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGG
EST: gi|125251013|gb|EL265098.1|EL265098
EST:     TCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|164113938|gb|ES099778.1|ES099778
EST:     CCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: CCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|124881597|gb|EH960499.1|EH960499
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCC
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCC
EST: gi|125134682|gb|EL175426.1|EL175426
EST:     TTTCTCTGCAACTGTACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTG
genomic: TTTCTCTGCAACTG-ACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTG
EST: gi|116409600|gb|EG452192.1|EG452192
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|124790939|gb|EH880618.1|EH880618
EST:     AAGAGAAGCGCTCATGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: AAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|124966401|gb|EL040509.1|EL040509
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTT
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTT
EST: gi|124770682|gb|EH860812.1|EH860812
EST:     CGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGTT
genomic: CGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|164190537|gb|ES021576.1|ES021576
EST:     AGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: AGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
EST: gi|125224441|gb|EL238526.1|EL238526
EST:     TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTG
genomic: TTTTCTCTGCAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTG
EST: gi|164100335|gb|ES002410.1|ES002410
EST:     CAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCC                         GTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT
genomic: CAACTGACCCTAAGAGAAGCGCTCGTGACTCTCACATCCCCgtaagtctca ... ttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggatctttactttgtagattctgataaagtgtggtgggttttcttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCTACTATCCCCATTACTGGAACTGGTATCAACCCAGCTAGAAGCTTTGGTG
                    ttctgat  putative branch site (score: 3)
                                        ttttcttgt  putative PPT
       tttacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgaatctttttatggtgtaatgacaaagtatgtatgaatctctaaggatctttactttgtagattctgataaagtgtggtgggttttcttgtgattagGTTTTGGCTCCACTTCCAATTGGATTTGCTGTGTTCATGGTGCATTTGGCTACTATCCCCATTACTGGAACTGGTATCAACCCAGCTAGAAGCTTTGGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC