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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAGCTAGAAAGCCTATCACTCGTACCAAGGTTCCATTTGAAAAGGGTTATAGCCAAATGGATTGGTTGAAACTTACACGAACACATCCCGATCTTGCAGgtaagcaaagctttcttttcttagtcctctttttcctaaatacattttgatgtgttggttaatgaaagagacaatttgtttatgcag

Basic information

species Arabidopsis thaliana
transcript AT5G09680.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G09680.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os07g12830.1 (Oryza sativa), 5'ss of exon 3
CCAGCTAGAAAGCCTATCACTCGTACCAAGGTTCCATTTGAAAAGGGTTATAGCCAAATGGATTGGTTGAAACTTACACGAACACATCCCGATCTTGCAGgtaagcaaagctttcttttcttagtcctctttttcctaaatac-attttgatgtgttggttaatgaaaga--gacaatttgtttatgcag------------
 |  | |  || |||    | ||| | || ||||| || || ||||| |||||||||||||||||| | || || || || |||||||| ||||||||||||||        | ||  | ||  || || | |   ||  ||  ||| | |   | ||| || || |     || || ||  |||   |             
TCTTCAAAGAAACCTGCAGCGCGTGCAAAAGTTCCTTTCGAGAAGGGCTATAGCCAAATGGATTGGCTTAAGCTGACCCGTACACATCCTGATCTTGCAGgtaaattgtagctgctactgtt--tcttcatctctgtatgtatgattattactggatggctagtgtacatttgaaaactttcttagttaatgtattgttact

upper sequence: AT5G09680.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G152438_T05 (Zea mays), 5'ss of exon 3
CCAGCTAGAAAGCCTATCACTCGTACCAAGGTTCCATTTGAAAAGGGTTATAGCCAAATGGATTGGTTGAAACTTACACGAACACATCCCGATCTTGCAGgtaagcaaagctttcttttcttagtcctctttttcctaaatacattttgatg-tgttggttaatgaaagagac---aatttgtttatgcag-----------
 || | |  || ||     | ||  | |||||||| ||||| || || ||||| |||||||||||| | ||||| |||| ||||||||| ||||| || ||||||    | | |  || |  | |   ||  |      | ||      ||  |||| | | ||    |  ||    || | | |    |            
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagtt--gttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctct

upper sequence: AT5G09680.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G152438_T02 (Zea mays), 5'ss of exon 3
CCAGCTAGAAAGCCTATCACTCGTACCAAGGTTCCATTTGAAAAGGGTTATAGCCAAATGGATTGGTTGAAACTTACACGAACACATCCCGATCTTGCAGgtaagcaaagctttcttttcttagtcctctttttcctaaatacattttgatg-tgttggttaatgaaagagac---aatttgtttatgcag--------------------------------------------------------------
 || | |  || ||     | ||  | |||||||| ||||| || || ||||| |||||||||||| | ||||| |||| ||||||||| ||||| || ||||||    | | |  || |  | |   ||  |      | ||      ||  |||| | | ||    |  ||    || | | |    |                                                               
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagtt--gttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctcttagcagacctattgtgggatctgagaatgacagtggtgttaaatcttgtag

upper sequence: AT5G09680.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv13s0064g00450.t01 (Vitis vinifera), 5'ss of exon 3
CCAGCTAGAAAGCCTATCACTCGTACCAAGGTTCCATTTGAAAAGGGTTATAGCCAAATGGATTGGTTGAAACTTACACGAACACATCCCGATCTTGCAGgtaagca----aagctttcttttcttagtcctctttttc----ctaaatacattttgatgtgttggttaatgaaagagacaatttg-----tttatgcag
 |  | || |||||| |  ||||  |||||||||| ||||| ||||||||||| |||||||||||| | || ||||| | ||||||||| |||||||||||||   |    |     |||| | ||| |  | || ||     | |||||| |    || | || ||||||| | |      |||      ||  ||  |
GCTACAAGGAAGCCTGTAGCTCGGGCCAAGGTTCCTTTTGAGAAGGGTTATAGTCAAATGGATTGGCTAAAGCTTACTCAAACACATCCTGATCTTGCAGgtatagagttgagaggctcttgtattattattattattttggacaaaatacctcagtatatttttgttaatgtatggtgttcttttagtacttcttgtgg

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|124978804|gb|EL051932.1|EL051932
EST:     AGCCAAATGGATTGGTTGAAACTTACACGAACACATCCCGTATCTTGCAG                         GCCTGAAGGGAGAGT
genomic: AGCCAAATGGATTGGTTGAAACTTACACGAACACATCCCG-ATCTTGCAGgtaagcaaag ... gtttatgcagGCCTGAAGGGAGAGT