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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCTTCTTCAAGCAAGAAATGGAGCTTTCTTTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCAgtaagtataatatgcttcccttttgatattctctttaacacttagatgatggtggttggggatctgatgatgtctactcttatctttttacttgtttag

Basic information

species Arabidopsis thaliana
transcript AT3G49870.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G49870.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os03g10370.1 (Oryza sativa), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCTTTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCAgtaagtataatatgcttcccttttgatattctctttaacacttagatgatggtggttggggatc-tgatgatgtctactcttatctttttacttgtttag
 || || ||||||||||| ||||||||||| |||||||| ||||||||||| || || ||||| ||||| |||||  |||| |||||||| |  | |||   | || ||   ||   | | | |   |||||  |  |   |||||   |||   ||| |                      
TCTTTTTTTCAAGCAAGAGATGGAGCTTTCCTTGATAGGGCTTCAAAATGCTGGGAAAACATCGCTTGTGAATGTCATTGCTgtaagtatcagtttcttaattatttattcacttgctga-attataatgat--ttctcatggatcaccatgtaatctgcag--------------------

upper sequence: AT3G49870.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G007188_T01 (Zea mays), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCTTTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCAgtaagtataatatgcttcccttttgatattctctttaacacttagatgatggtggttggggatctgatgatgtctactcttatctttttacttgtttag
|||||||||||||||||| ||||||||||| ||| |||| || |||||||| || || ||||||||||| ||     |||| |||||||| | ||  |||  || | |    |  | ||     |  || |||     |  | |||     ||   ||  | | | |||||    |     
CCTCTTCTTCAAGCAAGAGATGGAGCTTTCATTGGTAGGGCTCCAAAATGCTGGGAAAACATCACTTGTGAACTCCATTGCTgtaagtatta-atcattcttttcttaccacccatatactggatgtataatgaaatatatgtatc-----attcataaacatgtattttttgcag-----

upper sequence: AT3G49870.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G081622_T01 (Zea mays), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCTTTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCAgtaagtataatatgcttcccttttgatattctctttaacacttagatgatggtggttggggatctgatgatgtctactcttatctttttacttgtttag
|||||||||||||||||| ||||||||||| |||||||| || |||||||| || || || |||||||| ||   | |||| |||||||| |     |   |||||| ||  | ||   | |||  |||| | |  |      || |     ||  ||  | | | ||||| |        
CCTCTTCTTCAAGCAAGAGATGGAGCTTTCCTTGATAGGGCTCCAAAATGCTGGGAAAACGTCACTTGTGAACTCTATTGCTgtaagtattaggcatt---cttttggtac-cactcatatact-ggatgtttgatgaaatatatttatccttgg-taaacatgtatttttgcag------

upper sequence: AT3G49870.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv03s0091g00970.t01 (Vitis vinifera), 5'ss of exon 2
CCTCTTCTTCAAGCAAGAAATGGAGCTTTCTTTGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCAgtaagtataatatgcttcccttttgatattctctttaacacttagatgatggtggttggggatctga-tgatgtctactcttatcttttta-cttgtttag--
|||||| ||||| |||||||||||||| ||||||||||| ||||| ||||||||||| |||||||||||||||||| |||||||||||| | |          | |||  ||   ||||    ||   |     |  || ||  |   | || || |||   |  | | |  | ||||||     
CCTCTTTTTCAAACAAGAAATGGAGCTATCTTTGATAGGCCTTCAGAATGCAGGAAAAACATCACTTGTAAATGTTATTGCAgtaagtaaagttcatgcaaaatgtgagttttcttttattgtttccctctcctttctttggtttggcactggtggctaaattcctttgtggatcttgttgcaag

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|124891155|gb|EH970057.1|EH970057
EST:     TGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCA                         ACTGGTGGATACAGTGAAGACATGATTCCTACGGT
genomic: TGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCAgtaagtataa ... acttgtttagACTGGTGGATACAGTGAAGACATGATTCCTACGGT
EST: gi|164133832|gb|ES007414.1|ES007414
EST:     GGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCA                         ACTGGTGGATACAGTGAAGACATGATTCCTACG
genomic: GGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCAgtaagtataa ... acttgtttagACTGGTGGATACAGTGAAGACATGATTCCTACG
EST: gi|125039344|gb|EL111613.1|EL111613
EST:     ACTTCAAAATGCAGGAAAGACATCACTTGTAAATAGTTGTTGCA                         ACTGGTGGATACAGTG
genomic: ACTTCAAAATGCAGGAAAGACATCACTTGTAAAT-GTTGTTGCAgtaagtataa ... acttgtttagACTGGTGGATACAGTG
EST: gi|86072842|gb|DR368599.1|DR368599
EST:     TGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCA                         ACTGGTGGATACAGTGAAGACATGATTCCTACG
genomic: TGATAGGACTTCAAAATGCAGGAAAGACATCACTTGTAAATGTTGTTGCAgtaagtataa ... acttgtttagACTGGTGGATACAGTGAAGACATGATTCCTACG