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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagctgataaggagatgtcctaccatttatcatttctgttattcttttgctgttgagggagaatcatgatcttgttaatagtctactcttgttctctaatcattactcaccaaagcgtttgtgcaaaacacagGTCAAAGGTGTTGAGCAAGAATTCGATGGTGAAGAGGAGGGAACATCTTCTGGTCCAATGGAGTAGAGTAACAGAAATGCATCACAAAAAAACTTGAGAT

Basic information

species Arabidopsis thaliana
transcript AT1G51390.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51390.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv13s0106g00620.t01 (Vitis vinifera), 3'ss of exon 5
gtaaagctgataaggagatgtcctaccatttatcatttctgttattcttttgctgttgagggagaatcatgatcttgttaatagtctactcttgttctctaatcattactcaccaaagcgtttgtgcaaaacacagGTCAAAGGTGTTGAGCAAGAATTCGATGGTGAAGAGGAGGGAACATCTTCTGGTCCAATGGAGTAGAGTAACAGAAATGCATCACAAAAAAACTTGAGAT---
                 || |  |    | ||| || | | || || |||   | ||  |    | |  | || || ||  |||||||||||  ||  || | | ||          || ||| |       ||||||||||||||| ||||||||||| |||| |||||| || |  |  |       ||        | || |||  ||| | ||  ||  || || |||  |    
-----------------atttgtttgtttatattatgtttatttttatttatttattttg----atttttaattttatttttagtctactctatttgactgaactttct--------gcattttt-------acagGTCAAAGGTGTAGAGCAAGAATTAGATGCTGAAGATGAAG--ATGTTGCACTATCTGGCCAGATGGATTAATTGAATT-CACTACTCAATAATTTGGAAACAT
















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|125221576|gb|EL235661.1|EL235661
EST:     TTACTTTGAAATCCGGAATTGAGAATATGCTTATGCATTATGTTTCCGAG                         GTCAAAGGTGTTGAGCAAGAATTCGATGGTGAAGAGGAGGGAAC
genomic: TTACTTTGAAATCCGGAATTGAGAATATGCTTATGCATTATGTTTCCGAGgtaaagctga ... caaaacacagGTCAAAGGTGTTGAGCAAGAATTCGATGGTGAAGAGGAGGGAAC
EST: gi|164123750|gb|ES058951.1|ES058951
EST:     TTACTTTGAAATCCGGAATTGAGAATATGCTTATGCATTATGTTTCCGAG                         GTCAAAGGTGTTGAGCAAGAATTCGATGGTG
genomic: TTACTTTGAAATCCGGAATTGAGAATATGCTTATGCATTATGTTTCCGAGgtaaagctga ... caaaacacagGTCAAAGGTGTTGAGCAAGAATTCGATGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtctactcttgttctctaatcattactcaccaaagcgtttgtgcaaaacacagGTCAAAGGTGTTGAGCAAGAATTCGATGGTGAAGAGGAGGGAACATCTTCTGGTCCAATGGAGTAGAGTAACAGAAATGCATCACAAAAAAACTTGAGAT
                         tactcac  putative branch site (score: 1)
                  taatcatta  TA-rich tract