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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtggtagatcctttttcctatatattttacttactactgtgtgctttgttttatagaaatatctcatgtagccttttcattatcgttttgcagTCTTTCCATTACTGCAAGTACAGGCGCGACGAGAATCAGCTGTACATATTTGCGGATGACTGCGTGCCGAGGTGGCTGACAGCATCGCACCATGTGGATT

Basic information

species Arabidopsis thaliana
transcript AT3G55200.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G55200.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA10G43750.1 (Glycine max), 3'ss of exon 1
--gtgagtgg-tagatcctttttcctatatattttacttactactgtgtgctttgttttatagaaatatctcatgtagccttttcattatcgtttt--gcagTCTTTCCATTACTGCAAGTACAGGCGCGACGAGAATCAGCTGTACATATTTGCGGATGACTGCGTGCCGAGGTGGCTGACAGCATCGCACCATGTGGATT
   |     | | | |  ||| ||| ||  | ||| |   || || |    | |||| | |  | | ||||    ||    | |  ||  | || |   |||||||||||||| |||||||| ||||| || || || || || ||||||||||| ||||| ||||| || |||||||| || |||||  ||||  | ||||
aaatagacagcttgcttttttctccgattcaatttgcc-gctgctctaca-tgtgttctttgaataaatctttgctaattgtgttctttcccttctctccagTCTTTCCATTATTGCAAGTATAGGCGTGATGAAAACCAACTTTACATATTTGCTGATGATTGCGTTCCAAGGTGGCTTACTGCATCATACCACATAGATT

upper sequence: AT3G55200.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA20G38460.1 (Glycine max), 3'ss of exon 1
gtgagtggtagatcctttttcct-atatattttacttactactgtgtgctt-tgttttatagaaatatctcatgtagccttttcattatcgtttt--gcagTCTTTCCATTACTGCAAGTACAGGCGCGACGAGAATCAGCTGTACATATTTGCGGATGACTGCGTGCCGAGGTGGCTGACAGCATCGCACCATGTGGATT
 |     | | |   ||||  || ||  | | | ||  || || |     | |  |||  | |||    |||  || |  | |  ||  | || |   ||||| |||||||| |||||||| ||||| || || || || || ||||||||||| ||||| || || || |||||||| || |||||  ||||  | ||||
atattcagcatactattttctctgattcaatgtgct-gctgctctacatgtgttctttgaataaaatcttcagctaactgtgttctttcccttctctccagTCCTTCCATTATTGCAAGTATAGGCGTGATGAAAACCAACTTTACATATTTGCTGATGATTGTGTTCCAAGGTGGCTTACTGCATCATACCACATAGATT
















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|124858744|gb|EH943181.1|EH943181
EST:     TATATACGTTGGTGACATTCAGGAG                         TCTTTCCATTACTGCAAGTACAGGCGCGACGAGAATCAGCTGAACATATTT
genomic: TATATACGTTGGTGACATTCAGGAGgtgagtggta ... cgttttgcagTCTTTCCATTACTGCAAGTACAGGCGCGACGAGAATCAGCTGTACATATTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgctttgttttatagaaatatctcatgtagccttttcattatcgttttgcagTCTTTCCATTACTGCAAGTACAGGCGCGACGAGAATCAGCTGTACATATTTGCGGATGACTGCGTGCCGAGGTGGCTGACAGCATCGCACCATGTGGATT
                                            tcgtttt  CT-rich tract
      tttgttttatagaaat  TA-rich tract