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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtaccctaaactttatatcctaactgttatttccttctcggtctgtagtttcactcaccaaagcgaaagtcgagatgctaaaattgtaatcttttttgaaatagGGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGACAGATTCTCTGTCGGTTCAGGTTCACCATACGCTTATGGTGTTCTGGACA

Basic information

species Arabidopsis thaliana
transcript AT3G26340.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G26340.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G17960.1 (Glycine max), 3'ss of exon 5
gtcagtaccctaaactttatatcctaactgttatttccttctcggtctgtagtttcactcaccaaagcgaaagtcgagatgctaaa-attgtaatcttttttgaaatagGGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGACAGATTCTCTGTCGGTTCAGGTTCACCATACGCTTATGGTGTTCTGGACA
                             || |||  |    |    | | |    |||         |  |||| |  || ||   |  | | |  | | |    ||||| |||||  | || |||||||| |  ||||||||| | ||||| ||    ||||||||||| || || ||||||||||| |||||||||||  ||||||
-----------------------------gtaattcacaagacaaattattgagcaactttttctca-gctagtccaattgttacttacagcatttatctcttttttagGGTCCTGGTCTATATTATGTTGATAGTGAAGGAGGAAGACTTAAAGGCACTAGATTCTCTGTTGGATCTGGTTCACCATATGCTTATGGTGTATTGGACA
















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|164215816|gb|ES025007.1|ES025007
EST:     GTGGAATGGGACTTTCTGTTGGCACAATGATTGCTGGATGGGATGAAACA                         GGCCCTGGATTGTACTATGTTGATAACGAAGGAGGACGGCTTAAGGGAGAC
genomic: GTGGAATGGGACTTTCTGTTGGCACAATGATTGCTGGATGGGATGAAACAgtcagtaccc ... tttgaaatagGGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGAC
EST: gi|164207502|gb|ES091221.1|ES091221
EST:     AATGGGACTTTCTGTTGGCACAATGATTGCTGGATGGGATGAAACA                         GGCCCTGGATTGTACTATGTTGATAACGAAGGAGGACGGCTTAAGGGAGAC
genomic: AATGGGACTTTCTGTTGGCACAATGATTGCTGGATGGGATGAAACAgtcagtaccc ... tttgaaatagGGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGAC
EST: gi|86083116|gb|DR378875.1|DR378875
EST:     GTGGAAT-GGACTTTCTGTTGGCACAATGATTGCTGGATGGGATGAAACA                         GGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGAC
genomic: GTGGAATGGGACTTTCTGTTGGCACAATGATTGCTGGATGGGATGAAACAgtcagtaccc ... tttgaaatagGGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGAC
EST: gi|86076876|gb|DR372633.1|DR372633
EST:     GTGGAATGGGACTTTCTGTTGGCACAATGATTGCTGGATGGGATGAAACA                         GGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGAC
genomic: GTGGAATGGGACTTTCTGTTGGCACAATGATTGCTGGATGGGATGAAACAgtcagtaccc ... tttgaaatagGGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcactcaccaaagcgaaagtcgagatgctaaaattgtaatcttttttgaaatagGGCCCTGGATTGTACTATGTTGACAACGAAGGAGGACGGCTTAAGGGAGACAGATTCTCTGTCGGTTCAGGTTCACCATACGCTTATGGTGTTCTGGACA
                          tgctaaa  putative branch site (score: 2)
                                        tctttttt  putative PPT
                             taaaattgtaatcttt  TA-rich tract