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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttaaaaagtttccacctttcttcaattgttcattctcagcctttagtgtataatcacttattagtaatcttattcttgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG

Basic information

species Arabidopsis thaliana
transcript AT4G10610.2
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|86046042|gb|DR341797.1|DR341797
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCANNNNNGCTGGTTTGTTTATCGGCTTTGGACAG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTT-GCTGGTTTGTTTATCGGCTTTGGACAG
EST: gi|86046052|gb|DR341807.1|DR341807
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCAGCTTTGCTGGTTTGTTTATCGGCTTTTGGACAG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTT-GCTGGTTTGTTTATCGGCTTT-GGACAG
EST: gi|86046043|gb|DR341798.1|DR341798
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
EST: gi|86046079|gb|DR341834.1|DR341834
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
EST: gi|86046053|gb|DR341808.1|DR341808
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAGGTT
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAGGTT
EST: gi|116466690|gb|EG509282.1|EG509282
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
EST: gi|86046059|gb|DR341814.1|DR341814
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
EST: gi|116466689|gb|EG509281.1|EG509281
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
EST: gi|116412046|gb|EG454638.1|EG454638
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
EST: gi|86046041|gb|DR341796.1|DR341796
EST:     GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAG                         GTCACTTGAGGAGCAGCTTGCTGG
genomic: GTGAAGAGATCATAAGAAGAACTGTCTATGTGTCTGATATTGACCAACAGgttttaaaaa ... tgggtttaagGTCACT-GAGGAGCAGCTTGCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctcagcctttagtgtataatcacttattagtaatcttattcttgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG
                                    tcttattctt  CT-rich tract
                          ttattagtaatcttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttaaaaagtttccacctttcttcaattgttcattctcagcctttagtgtataatcacttattagtaatcttattcttgggtttaagGTCACTGAGGAGCAGCTTGCTGGTTTGTTTATCGGCTTTGGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT