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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGAAAAATGCTGAAGCCGCTGGAAATGAAGACTGTCCTGTTAAGATTAAATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAGgttaggcaatcttctatcttgcactatgatttacttggtttggtaattggtatattatagaaatcctcccctacttatctttaagaggtttatgatctct...

Basic information

species Arabidopsis thaliana
transcript AT2G40290.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G40290.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G058138_T01 (Zea mays), 5'ss of exon 3
TATGAAAAATGCTGAAGCCGCTGGAAATGAAGACTGTCCTGTTAAGATTAAATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAGgttaggcaatcttctatcttgcactatgatttacttggtttggta-attggtatattatagaaatcctcccctacttatctttaagaggtttatgatctct-
|||||| || |||||||| || || |||||  | |||||||| ||||||||| | |||||||| || || ||||| || || || ||||| |||||||||||| | || | || ||      | ||| || |      |||| || |   |    || |  |  |    |    || |     |       |   |||| | 
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgtt-gacattattttagtacttaatat-atgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg

upper sequence: AT2G40290.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G02820.1 (Glycine max), 5'ss of exon 5
TATGAAAAATGCTGAAGCCGCTGGAAATGAAGACTGTCCTGTTAAGATTAAATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAGgttag-gcaatcttctatcttgcactatgatttacttggtttggtaattggtatattatagaaatcctcccctacttatctttaag--aggtttatgatctct--
 |||   || |||||||| |  |||||||| ||||| ||||| || |||||| | |||||||| || || ||||| ||||| || |||||||| ||||||||||| ||||| ||  | | |  |   |||||   |   | |  |  |||| || |   |     || |  || ||    | ||    | ||||  |  |  |  
AATGCGTAAGGCTGAAGCTGTGGGAAATGATGACTGCCCTGTCAAAATTAAACTTGTTGCTCCCCCACTTTATGTTCTTACCACCCAGACACTGGACAAGgttagtgcaatttt--aacataaatcttgatta--tgcatataatttttgg-atgtatgaatttgccactgctgctgcattgtagattatgtttgagggcatttg

upper sequence: AT2G40290.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA11G35600.1 (Glycine max), 5'ss of exon 5
TATGAAAAATGCTGAAGCCGCTGGAAATGAAGACTGTCCTGTTAAGATTAAATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAGgttag-gcaatcttc-tatcttgcactatgatttacttggtttggtaattggtatattatagaaatcctcccctacttatctttaagaggtttatgatctct-
 ||| | || |||||||| || |||||||| ||||| || || || |||||| | |||||||| || || ||||| ||||| || |||||||| ||||||||||| ||||| |||  ||    |   || || ||  |  |||    ||   |  ||| |      ||| |  |  |  | |  |  | ||||  |  |  | 
AATGCATAAGGCTGAAGCTGCAGGAAATGATGACTGCCCCGTCAAAATTAAACTTGTTGCTCCCCCACTTTATGTTCTTACCACCCAGACACTGGACAAGgttagtgcaattttcacataaatcttgattatgtatataatttttggatgtatgaattttgc---ccctactgttgtattgtagataatgtttgggggcattt

upper sequence: AT2G40290.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv13s0067g01710.t01 (Vitis vinifera), 5'ss of exon 5
TATGAAAAATGCTGAAGCCGCTGGAAATGAAGACTGTCCTGTTAAGATTAAATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAGgttaggcaatcttctatcttgcactatgatt-tacttggtttggtaattggtatattatagaaatc---ctcccctacttatctttaagaggttta-tgatctct
 |||   || || ||||| || || ||| | || ||||| || || |||||| |||||||||| || || ||||| |||||||||||||| ||||||||||| | |  |   | || |   || | |     |   |  |||  |     || | |  ||   | |   ||    | ||  | |||    |||| | ||      
AATGCGGAAAGCAGAAGCGGCGGGCAATAAGGATTGTCCAGTGAAAATTAAACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacacagtgtagcaaacaatttccccctggataattttattgcctgtgtttagtacggagcaaacttgtttcctcctttttggtgggttgaatgg-----

upper sequence: AT2G40290.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv06s0004g07100.t01 (Vitis vinifera), 5'ss of exon 5
TATGAAAAATGCTGAAGCCGCTGGAAATGAAGACTGTCCTGTTAAGATTAAATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAGgttaggcaatcttctatct-tgcactatgatttacttggtttggtaattggtatattatagaaatcctcccctacttatctttaagaggtttatgatctct
||||   || |||||||| || || ||| ||||||| ||||| || || |||||||||||||| || || ||||| || || ||||| || ||||||||||| ||       | || || || |   || |   |||| ||     | |    |  | |||  |   |  | |   |  ||||      |   |  || ||
TATGCGTAAAGCTGAAGCTGCCGGCAATAAAGACTGCCCTGTGAAAATAAAATTGGTTGCTCCTCCCCTCTATGTTCTAACCACTCAAACTCTTGACAAGgtaagcttgagatttaactgtgtaac-tggtcatcttgtttcccctactatgttgatgtaggcaagttttcttttatgactttgttttctcattattcact

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|125208047|gb|EL223001.1|EL223001
EST:     ACTCAGACACTTGACAAG                         GAACAAGGGATTGAAATTCTAAACAAAGCCATAGCAGCATGCACTGAGACA
genomic: ACTCAGACACTTGACAAGgttaggcaat ... tattaaacagGAACAAGGGATTGAAATTCTAAACAAAGCCATAGCAGCATGCACTGAGACA
EST: gi|116410699|gb|EG453291.1|EG453291
EST:     AATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAG                         GAACAAGGGATTGAAATTCTAAACAAAGCCATAGCAGCATGCACTGAGACA
genomic: AATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAGgttaggcaat ... tattaaacagGAACAAGGGATTGAAATTCTAAACAAAGCCATAGCAGCATGCACTGAGACA
EST: gi|124791496|gb|EH881175.1|EH881175
EST:     TTACTACTCAGACACTTGACAAG                         GAACAAGGGATTGAAATTCTAAACAAAGCCATAGCAGCATGCACTGAGACA
genomic: TTACTACTCAGACACTTGACAAGgttaggcaat ... tattaaacagGAACAAGGGATTGAAATTCTAAACAAAGCCATAGCAGCATGCACTGAGACA