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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAAACGTAACACTGAGCATGATGCACCATACTGGAGAGGTCCTATATGGATGAACATGAACTACATGATTCTTTCTTCTCTTTACCATTACTCTATAGgtaattttctaccctccacttggtcaaaagcgccacatcatactacaagacctctacgttttcttactatcatatgcattcggtttaccatgtgtcaaaattcctgcag

Basic information

species Arabidopsis thaliana
transcript AT1G67490.1
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G67490.2 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: LOC_Os01g69210.1 (Oryza sativa), 5'ss of exon 20
ATGAAACGTAACACTGAGCATGATGCACCATACTGGAGAGGTCCTATATGGATGAACATGAACTACATGATTCTTTCTTCTCTTTACCATTACTC-TATAGgtaattttctaccctccacttggtcaaaagcgccacatcatactacaagacctctacgttttcttactatcatatgcattcggtttaccatgtgtcaaaattcctgcag
||||| || ||||||||||||||| | ||||| ||||||||| | || ||||| |||||||||||||||||||||||    ||  |||| ||  |  || |  || | | || |     || | | || | |    || | |  |||     || ||  ||||  |  |  ||     ||    |  ||  |||          ||| ||
ATGAAGCGCAACACTGAGCATGATCCCCCATATTGGAGAGGTGCCATTTGGATAAACATGAACTACATGATTCTTTCAGGACTACACCACTATGCACATGgtaaactctataacagatgct-gctaaacaactattcagctt-ttaccct-tctgtaaattttactgtttgcacgatgatctaata-acattgttctg----ctctgaag

upper sequence: AT1G67490.2 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: GRMZM2G071675_T01 (Zea mays), 5'ss of exon 3
ATGAAACGTAACACTGAGCATGATGCACCATACTGGAGAGGTCCTATATGGATGAACATGAACTACATGATTCTTTCTTCTCTTTACCATTACTCTATAGgtaattttctaccctccacttggtcaaaagcgccacatcatactacaagacctctacgttttcttactatcatatgcattcggtttaccatgtgtcaaaattcctgcag
||||| ||||| || ||||||||  | || || ||||||||| | || ||||| ||||||||||||||| |||||||  | ||  | || ||  |     ||||       | ||  | |||   |        | | | |  | ||| |||  |  | |  | || |   ||| |||||| | || || |||                
ATGAAGCGTAATACAGAGCATGACCCCCCTTATTGGAGAGGTGCCATTTGGATAAACATGAACTACATGGTTCTTTCGGCACTACATCACTATGCACATAgtaa------gctctttaattgcctagt----ttataccct-ttgcaa-acccttctgctggcataatgatata-gcattctgctttcc-tgtag--------------

upper sequence: AT1G67490.2 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: EFJ35102 (Selaginella moellendorffii), 5'ss of exon 20
ATGAAACGTAACACTGAGCATGATGCACCATACTGGAGAGGTCCTATATGGATGAACATGAACTACATGATTCTTTCTTCTCTTTACCATTACTCTATAGgtaattttctaccctccacttggtcaaaagcgccacatcatactacaagacctctacgttttcttactatcatatgcattcggtttaccatgtgtcaaaattcctgcag
|  | ||||||||| |||||||| || || |||||||| || ||| ||||||| |||||||||||  |  | ||||| || ||| || | |||||   ||||||            |  ||||    |||||     ||   | ||      | |  |||||                                               
AACAGACGTAACACCGAGCATGACGCTCCTTACTGGAGGGGCCCTGTATGGATCAACATGAACTATCTCGTCCTTTCATCCCTTCACTACTACTCGCAAGgtaacgc---gtgtgacttttggctgcaagcgtttgttccatccactgtgtgtgtgtgtttttag--------------------------------------------

upper sequence: AT1G67490.2 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: EFJ24054 (Selaginella moellendorffii), 5'ss of exon 21
ATGAAACGTAACACTGAGCATGATGCACCATACTGGAGAGGTCCTATATGGATGAACATGAACTACATGATTCTTTCTTCTCTTTACCATTACTCTATAGgtaattttctaccctccacttggtcaaaagcgccacatcatactacaagacctctacgttttcttactatcatatgcattcggtttaccatgtgtcaaaattcctgcag
|  | ||||||||| |||||||| || || ||||||||||| ||| ||||||| |||||||||||  |  | ||||| || ||| || | |||||   ||||||            |  ||||    |||||        || | ||    || |  || ||  ||                                           
AACAGACGTAACACCGAGCATGACGCTCCTTACTGGAGAGGCCCTGTATGGATCAACATGAACTATCTCGTCCTTTCATCCCTTCACTACTACTCGCAAGgtaacgc---gtgtgacttttggctgcaagcgtt------tattccatccactgtgtgtgtttctag------------------------------------------

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|19799866|gb|AU231156.1|AU231156
EST:     GATGAACAT-AACTACATGATTCTTTCTTCTCTTTACCATTACTCTATAG                         TGGATGGACCGTATAGAGAAAAGTCGAAACCAATTTACACGGAACTAAGGA
genomic: GATGAACATGAACTACATGATTCTTTCTTCTCTTTACCATTACTCTATAGgtaattttct ... attcctgcagTGGATGGACCGTATAGAGAAAAGTCGAAAGCAATTTACACGGAACTAAGGA