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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaactagtttcttttctttatcagtctttctggttttacattcatatctccatgttagatcaaataagaagtgttaatgatttggaagctttctggtgaactaatttggtcgatacttgatactttggatagGTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCAACCACCGCAACGAGTGCCATTGGACCCATGGGAAAGATCTCGGCTCACC

Basic information

species Arabidopsis thaliana
transcript AT5G09770.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G09770.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv04s0044g00980.t01 (Vitis vinifera), 3'ss of exon 5
gtaaaactagtttcttttctttatcagtctttctggt-tttacattcatatctccatgttagatcaaataagaagtgttaatgatttggaagctttctggtgaactaatttggtcgatacttgatactttggatagGTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCAACCACCGCAACGAGTGCCATTGGACCCATGGGAAAGATCTCGGCTCACC
               |    ||||  |  | |||| | ||| |||| || |  || |||| |  |          |||| ||| |  |     |   || |  | | ||       ||  ||  |  | || | |||||||| || |||||||| |||||||| || |||||||| ||||||||||| ||||| ||  ||||||| ||||| || |||  |||||| || |||  |
--------------ctgaagttattcgcttatctgatatttccattgatgtaccc-tgtttggcc--------tttgttgatg-tccg-----tccttgttttaattat-------atgtttactcatgtgaacagGTTTATAGATAGAGAGAATGAGCTTAGACAGTCAAAACCTGCAACACCTCAGCCACCACAGAGAGTGCCCTTGGATCCCTGGACAAGATCCCGTCTCTGC
















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|19741457|gb|AU226810.1|AU226810
EST:     CTCGCATACGAGTTGGTGATGCTGCTCCTATGGCCTATATCGA                         GTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCA
genomic: CTCGCATACGAGTTGGTGATGCTGCTCCTATGGCCTATATCGAgtaaaactag ... ctttggatagGTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCA
EST: gi|86077821|gb|DR373578.1|DR373578
EST:     CTACGTACTCGCATACGAGTTGGTGATGCTGCTCCTATGGCCTATATCGA                         GTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCA
genomic: CTACGTACTCGCATACGAGTTGGTGATGCTGCTCCTATGGCCTATATCGAgtaaaactag ... ctttggatagGTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCA
EST: gi|125090706|gb|EL148590.1|EL148590
EST:     CTATGGCCTATATCGA                         GTTTATTGACAGAGAGAACGAGCTTAGGACAATCAAAACCAGCAACACCTC
genomic: CTATGGCCTATATCGAgtaaaactag ... ctttggatagGTTTATTGACAGAGAGAACGAGCTTAGG-CAATCAAAACCAGCAACACCTC
EST: gi|19875182|gb|AU236013.1|AU236013
EST:     CTACGTACTCGCATACGAGTTGGTGATGCTGCTCCTATGGCCTATATCGA                         GTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCA
genomic: CTACGTACTCGCATACGAGTTGGTGATGCTGCTCCTATGGCCTATATCGAgtaaaactag ... ctttggatagGTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttggaagctttctggtgaactaatttggtcgatacttgatactttggatagGTTTATTGACAGAGAGAACGAGCTTAGGCAATCAAAACCAGCAACACCTCAACCACCGCAACGAGTGCCATTGGACCCATGGGAAAGATCTCGGCTCACC
                     aactaattt  TA-rich tract