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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatattttctactgttacctaatataatttgttttatactcgctcttaccttttgttgaatctctctcttcttaatttttatagAGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCAC

Basic information

species Arabidopsis thaliana
transcript AT3G13670.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G53810.1 (Glycine max), 3'ss of exon 8
----------------------------------------------gtaatatattttctactgttacctaatataat--------ttgttttatactcgctcttaccttttgttga--------atctctctcttcttaatttttatagAGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCAC-
                                               || |||  | | ||||  |  ||| ||| |         |||||| ||  ||    ||| | ||| |  |        |    | | || ||||||| | ||||||||| ||| |||| || ||||  ||||||||||| || ||||||||||| |||||||||||||| |||||  | ||||||||||| ||||| |||||  
ttacctttttccttctttttgattttttcttttattctacttgttgctattattatctttacttgtttctattattacggtttttgttgtttcatgttcatggttatcatttatcaatctgcttcagtcttatatttttaatttctgtagaGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCATA

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G47680.1 (Glycine max), 3'ss of exon 8
----------------------------------gtaatatattttctactgttacc-taatataatttgttttatactcgctcttaccttttgttgaatctctc--------tcttcttaatttttatagAGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCAC
                                    | | || ||  | || |||   |  | |   |||||||||  ||    ||| | ||| |  |    ||         | || |||||||||  |||||||| ||| |||| || ||||  ||||||||||| || ||||||||||| |||||||||||||| |||||  | ||||||||||| ||||| ||||| 
gttaccttttttctttccttttgatttttctcttaaattctacttgtttctattattatggtttttgttgttttatgttcatggttatcatttatccatctgcttcagtcttatatttttaatttttgcagAGGGACTGTTCGATATGCCAGTGTTCATGCTCATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCAT

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G38770.1 (Glycine max), 3'ss of exon 8
----------------------gtaatatattttctactgttacctaatataatttgttttatactcgctcttaccttttgttgaatctctc---tcttcttaatttttatagAGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCAC
                       |  | | |||||| ||    | |    |  | |  ||| || | | | |  | | || |  |   |||     ||| |   ||| | |||||| || ||| |||| || ||||  ||||||||||| |||||||||||||| ||||| |||||||| |||||  | ||||| |||||  | || ||||| 
gtattcttccccccctccccccctcttttcttttcttcttccccttgcagttctcttctttttaatggtttt--cttgttatcaatgttcttgaaccttatctttttatgtagAGGAACTGTTCGATATGCTAGTGTTCATGCTCATTTGGGGAGAACTGCTAGTAGAAGAGATGATCTTGAATCTCTTGCATACACACTAGTATTCCTTCAT

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G44050.1 (Glycine max), 3'ss of exon 8
-----------------------gtaatatattttctactgttacctaatataatttgttttatactcgctcttaccttttgttg--aatctctct----cttcttaatttttatagAGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCAC
                        |  | | || | | |       || |    ||| ||| ||| |   |||| | | | |||   ||| |   |    || ||   ||| | |||||| || ||| |||| || ||||  ||||||||||| |||||||||||||| ||||| |||||||| |||||  | ||||| |||||  |||| || || 
gttttcttcccccccaccccctccttttcttttcttttcccccttgtagttctctttttttaatagtt-ttcttgcatatggttatcaatgttcttgagtctcctctttttatgtagAGGAACTGTTCGATATGCTAGTGTTCATGCTCATTTGGGGAGAACTGCTAGTAGAAGAGATGATCTTGAATCTCTTGCATACACACTAGTCTTCCTCCAT

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|86063829|gb|DR359586.1|DR359586
EST:     GGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAG                         AGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAG
genomic: GGTGGTAGCGGACAACATGTTGAATATGATCAACGTCCTGATATGTTTAGgtaatatatt ... atttttatagAGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttatactcgctcttaccttttgttgaatctctctcttcttaatttttatagAGGGACAGTTAGATACGCAAGTGCACATGCTCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCAC
                                        tcttaat  putative branch site (score: 3)
                               tctctctcttcttaat  CT-rich tract
                                     tcttcttaatttttat  TA-rich tract