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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAATCAGATTCAAAAGCCAAAATCAAAGCTTGGTGATGGGATCTGGAGCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctcatcaaatttcttttctctccttctgccttaaagttccttccttttttggctaatagcttctcatatgttatatactcaattcatcacagcc...

Basic information

species Arabidopsis thaliana
transcript AT1G74520.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G74520.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA17G10730.1 (Glycine max), 5'ss of exon 1
GAAGAATCAGATTCAAAAGCCAAAATCAAAGCTTGGTGATGGGATCTGGAGCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctcatcaaatttcttttctctccttctgccttaaagttccttccttttttggctaatagcttctcatatgttatatactcaattcatcacagcc-------------------------
                           |||| |   | ||||||||||| || |||||||||||||||||||||||||  ||||||||||| |||||||||||    |  |     || ||  |||| | | | |  | || |  |  | | | |||  |  |   |  |  |    | | |  |||| | || |                              
-----------------------CTCGAAAGATCAATAATGGGATCTGGGGCCGGCAATTTCCTCAAGGTTCTTCTCAAAAACTTCGATGTCCTTGCTGGgtatgttttcttttgctttttccctcttccttttctatcaaatcacaccttctgttgaatg-tgcttcttttttctctttcttttcaactgataaacatgttatctatttttgcttctattgcag

upper sequence: AT1G74520.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA05G01160.1 (Glycine max), 5'ss of exon 1
GAAGAATCAGATTCAAAAGCCAAAATCAAAGCTTGGTGATGGGATCTGGAGCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgta-atgctcatcaaatttcttttctc----tccttctgccttaaa------------------gttccttccttttttggctaatagcttctcatatgttatatactcaattc--atcacagcc----
    |  |  |  | |      |    | || |   | ||||||||||| || ||||||||||||||||| |||||||  ||||||||||| |||||||||||  |  |  |    ||||||||  |    |||||||  || |||                  || | | | |||| |   |  |  |  || ||||||||| |  || |||    |  |        
ACTAACACTAACACTAGCATTCACTCAAGAGATCAATAATGGGATCTGGGGCCGGCAATTTCCTCAAGGTGCTTCTCAAAAACTTCGATGTGCTTGCTGGgtatgttttttttttttttctttttccctcttccttctctctcaaatcacacattctccaaaatgtgcttcctttttctctttcttctcaactgatatgttatgttatctatttttgtttctattgcag
















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|86052442|gb|DR348199.1|DR348199
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052429|gb|DR348186.1|DR348186
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052441|gb|DR348198.1|DR348198
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052439|gb|DR348196.1|DR348196
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052436|gb|DR348193.1|DR348193
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052433|gb|DR348190.1|DR348190
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052431|gb|DR348188.1|DR348188
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052443|gb|DR348200.1|DR348200
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTNG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052432|gb|DR348189.1|DR348189
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|19878871|gb|AU239702.1|AU239702
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052438|gb|DR348195.1|DR348195
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|125254821|gb|EL268906.1|EL268906
EST:     CTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: CTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT
EST: gi|86052440|gb|DR348197.1|DR348197
EST:     GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGG                         GCCTGTGGTTAGTCTCGTTTATCCTCT
genomic: GCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctca ... atatttgcagGCCTGTGGTTAGTCTCGTTTATCCTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAATCAGATTCAAAAGCCAAAATCAAAGCTTGGTGATGGGATCTGGAGCTGGCAATTTCCTCAAGGTTCTTCTCAGGAACTTCGATGTTCTTGCTGGgtaatgctcatcaaatttcttttctctccttctgccttaaagttccttccttttttggctaatagcttctcatatgttatatactcaattcatcacagcc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttctgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccttcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttctcat