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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctttttatcaaatgtagattccttgttagtgaaatgattactagggttttcataaagcttctctctttttgctcactcacaaatattgaattcttaagtagtgaatgaaatggttgatttgattcaaaaggttgttcttttattgtttgttttgcttatacgttgttgttggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTTTCATGGGTTACAAAGCTGGTATGACTCACATTGTCAGAGAAGTGGAGAA

Basic information

species Arabidopsis thaliana
transcript AT1G43170.7
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|164198902|gb|ES094345.1|ES094345
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027147|gb|DR322900.1|DR322900
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027140|gb|DR322893.1|DR322893
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|124781732|gb|EH871675.1|EH871675
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCAC
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCAC
EST: gi|86027115|gb|DR322868.1|DR322868
EST:     ACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: ACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|116447558|gb|EG490150.1|EG490150
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027196|gb|DR322949.1|DR322949
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027120|gb|DR322873.1|DR322873
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027136|gb|DR322889.1|DR322889
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|47830691|gb|CK120375.1|CK120375
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|47830713|gb|CK120397.1|CK120397
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|116447562|gb|EG490154.1|EG490154
EST:     TTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|164187330|gb|ES069678.1|ES069678
EST:     GAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: GAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027194|gb|DR322947.1|DR322947
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027153|gb|DR322906.1|DR322906
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027192|gb|DR322945.1|DR322945
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|47831476|gb|CK121160.1|CK121160
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027155|gb|DR322908.1|DR322908
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|116393945|gb|EG436537.1|EG436537
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027105|gb|DR322858.1|DR322858
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|124857859|gb|EH942296.1|EH942296
EST:     TTCTCTTGGTTTCCTTCCAGGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCA
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCA
EST: gi|86027177|gb|DR322930.1|DR322930
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|86027162|gb|DR322915.1|DR322915
EST:     TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCTTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: TTCTCTTGGTTTCCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
EST: gi|125227363|gb|EL241448.1|EL241448
EST:     CCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGG                         TGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT
genomic: CCTTCCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGgtgagtcttt ... ggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaggttgttcttttattgtttgttttgcttatacgttgttgttggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTTTCATGGGTTACAAAGCTGGTATGACTCACATTGTCAGAGAAGTGGAGAA
            ttttattgtttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtctttttatcaaatgtagattccttgttagtgaaatgattactagggttttcataaagcttctctctttttgctcactcacaaatattgaattcttaagtagtgaatgaaatggttgatttgattcaaaaggttgttcttttattgtttgttttgcttatacgttgttgttggtttatcagTGAAGGCGTTCCCTAAGGATGACCAAACCAAGCCTTGCAAGTTCACAGCTTTCATGGGTTACAAAGCTGGTATGACTCACATTGTCAGAGAAGTGGAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA