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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcaaatggtagttttggtttcaattgctaaaatgctttaaaaagagtcttgactaacttttggggtttatctatggatttcagTTATCATTCCAAGAATGGACTCAACAAATGAAAGATATGCTTGATGCACGGAAACGCGGTGATCAATCTTTCCGCGAGAAAGATTTCAAAACAGCCATCG

Basic information

species Arabidopsis thaliana
transcript AT4G35230.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os10g39670.1 (Oryza sativa), 3'ss of exon 7
-------------------------------------gtaatcaaatggtagttttggtttcaattgctaaaatgctttaaaaagagtcttgactaacttttggggtttatctatggatttcagTTATCATTCCAAGAATGGACTCAACAAATGAAAGATATGCTTGATGCACGGAAACGCGGTGATCAATCTTTCCGCGAGAAAGATTTCAAAACAGCCATCG
                                      ||      ||| | |  ||||  |  | |      | |||   |  | | | || |||| ||     |||   || |    | ||| |||| |||||||||||||||||||| |||| ||||||| | |||||  ||||||| ||||||    | || || || ||| |||||||   |||||| |
gtaaagacaatatagagcactgtggctccactcttttctagctggttggga-tactggtccctctcgactgttttcttcctatggggacgtgtctaaatt-----gttctcctct---ctgcagCTATCTTTCCAAGAATGGACTCAACAGATGAGAGATATGTTGGATGCTAGGAAACGTGGTGATTTTGCATTTCGAGACAAAAATTTCAAGCAAGCCATAG

upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G48030.1 (Glycine max), 3'ss of exon 5
gtaatcaaatggtagttttggtttcaattgctaaaatgctttaaaaagagtcttgactaacttttggggtttatctatggatttcagTTATCATTCCAAGAATGGACTCAACAAATGAAAGATATGCTTGATGCACGGAAACGCGGTGATCAATCTTTCCGCGAGAAAGATTTCAAAACAGCCATCG
||||   |  |||   || ||||| ||||  ||  ||  ||        |   || |  |   || |  |||   | |||  ||||||| || |||||||| ||||||||||| |||| ||||||||| || ||| |||| || || ||  |  | ||||| || || || || || |||||||| |
gtaactgatgggtgcattgggtttaaatt--tactatttttggttggatgatatgccataaggtttgaatttggat-tgg--ttcagTTGTCGTTCCAAGAGTGGACTCAACAGATGAGAGATATGCTGGAGGCAAGGAAGCGTGGAGACTATGCATTCCGTGACAAGGACTTTAAGACAGCCATTG

upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
gtaatcaaatggt------agttttggtttcaattgctaaaatgctttaaaaagagtcttgactaacttttggggtttatctatggatttcagTTATCATTCCAAGAATGGACTCAACAAATGAAAGATATGCTTGATGCACGGAAACGCGGTGATCAATCTTTCCGCGAGAAAGATTTCAAAACAGCCATCG
|||||  | | ||      || |||  |||      ||  |     ||| |   | |  ||| |   || |   | |  | ||| | || ||||| || |||||||||||||| ||||| |||| ||||||||| || ||| |||| || || ||     | ||||| || || ||||| ||||| ||||| |
gtaattgagttgttgatgaaggtttttttttggcatctctatactcttacatccaatggtgagtggtttatcttggtgttgtattggtt-cagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG

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|124775040|gb|EH865169.1|EH865169
EST:     TTTTGGTCATGACACATTACAGAGACGACGAGGGCACAAACGAG                         TTATCATTCCAAGAATGGACTCAACAAATGAAAGATATGCTTGATGCACGG
genomic: TTTTGGTCATGACACATTACAGAGACGACGAGGGCACAAACGAGgtaatcaaat ... tggatttcagTTATCATTCCAAGAATGGACTCAACAAATGAAAGATATGCTTGATGCACGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaatgctttaaaaagagtcttgactaacttttggggtttatctatggatttcagTTATCATTCCAAGAATGGACTCAACAAATGAAAGATATGCTTGATGCACGGAAACGCGGTGATCAATCTTTCCGCGAGAAAGATTTCAAAACAGCCATCG
                      gactaac  putative branch site (score: 1)
       tttaaaaaga  TA-rich tract