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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgattgaaactgctggtctttcaatttaagtgagatggtttgtggaccttctgaacgcagtggcgtcatcatcgagactgctctaacttatggtttaattcacttcagGTCCTGCATTAGTTACTACGAAGGATGCTGGAGACGCTGTTACTTTGCTACAATCACTGACTGGATCAACATTTGATAGCAGCCAGCTAGTTTTAACTGC

Basic information

species Arabidopsis thaliana
transcript AT3G55020.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 10
gtacttgattgaaactgctggtctttcaatttaagtgagatggtttgtggaccttctgaacgcagtggcgtcatcatcgagactgctctaacttatggtttaattcacttcagGTCCTGCATTAGTTACTACGAAGGATGCTGGAGACGCTGTTACTTTGCTACAATCACTGACTGGATCAACATTTGATAGCAGCCAGCTAGTTTTAACTGC
||||| |  ||||| || |        ||  |||   ||    |   |   || |    | ||          |||  ||   |  | | | | |||  ||          ||||||||| || || || || |||||||||||||| || |||||||| || || ||  || |||| || |||||||||||||| ||||| ||  | || ||
gtact-ggctgaaaatgtttaatggaaaaagtaaactag-caatgcttaagccatgcatatgc----------tcacagaacttaatttca-tcatgtcttg--------tagGTCCTGCGTTGGTAACAACAAAGGATGCTGGAGATGCAGTTACTTTACTTCAGTCGTTGGCTGGCTCCACATTTGATAGCAGTCAGCTTGTACTGACAGC

upper sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 10
gtacttgattgaaactgctggtctttc---aatttaagtgagatggtt--tgtggaccttctga-acgcagtggcgtcatcatcgagactgctctaacttatggtttaattcacttcagGTCCTGCATTAGTTACTACGAAGGATGCTGGAGACGCTGTTACTTTGCTACAATCACTGACTGGATCAACATTTGATAGCAGCCAGCTAGTTTTAACTGC
||||| | |  ||     |    |  |   |  ||      |||  |     ||||  |  |   | | || ||  || |  |  ||| ||   ||| ||   ||| | |    |  ||| ||||| || ||||| || |||||||||||||| || |||||| |||| || |||||| |||| |||||||||||||||||  | || || || |||||
gtactgggtaaaagacatttaattaccgtgatattcttcaggataatcaacatggatttaatactatgtag-ggtatctttttacagaatg---taatttt--gttcagtctcttgtagGACCTGCTTTGGTTACCACTAAGGATGCTGGAGATGCAGTTACTCTGCTGCAGTCACTGGCTGGCTCAACATTTGATAGCAGTGAACTTGTCTTGACTGC
















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|163992751|gb|ES045378.1|ES045378
EST:     AACTCGTGTTATGCTTTTCAGAACAGCACTCGCATTGATGGAACTATATG                         GTCCTGCATTAGTTACTACGAAGGA
genomic: AACTCGTGTTATGCTTTTCAGAACAGCACTCGCATTGATGGAACTATATGgtacttgatt ... ttcacttcagGTCCTGCATTAGTTACTACGAAGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacgcagtggcgtcatcatcgagactgctctaacttatggtttaattcacttcagGTCCTGCATTAGTTACTACGAAGGATGCTGGAGACGCTGTTACTTTGCTACAATCACTGACTGGATCAACATTTGATAGCAGCCAGCTAGTTTTAACTGC
                                             ttcacttc  CT-rich tract
                                        tttaattca  TA-rich tract