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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccttaaaatgatataattccatgaatattttgctctgagagttgcagcatataagacttgaaaatgttggctactttgtattctgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCTCCGGAAATCGAGCAACCTTATTTTGAATCTGTTTCATCTCATGGCGGGT

Basic information

species Arabidopsis thaliana
transcript AT1G60490.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: LOC_Os05g08810.1 (Oryza sativa), 3'ss of exon 15
gtaccttaaaatgatataattccatgaatattttgctctgagagttgcagcatataagacttgaaaatgttggctactttgtattctgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCTCCGGAAATCGAGCAACCTTATTTTGAATCTGTTTCATCTCATGGCGGGT
              || || ||  | | ||  |||    || |  ||||  || |    ||      || |     |    |  || || || ||||||||||||||| || ||||| || |||||||||||||| ||||||||| |  |||| || || | ||| || |||||||||||  |  | |||    | 
-------------gta-aactctttaactaacttggcgggatatctgcatgatttgttcctc-----tgctaaaagccgattgctc-gtttt-cagCCAATACTACACGAGATTCAAGTCATACTGTTGCGAAGCATACAACATTTTAAGGAAGTCCAGTAGCCTCATATTGAATCTGTTCAACTTGATGAGAAGA

upper sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GRMZM2G103721_T01 (Zea mays), 3'ss of exon 15
gtaccttaaaatgatataattccatgaatattttgctctgagagttgcagcatataag-acttgaaaatgttggctactttgtattctgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCTCCGGAAATCGAGCAACCTTATTTTGAATCTGTTTCATCTCATGGCGGGT
|||  |   | |   | ||||     ||   |||||| | |  ||| ||||| ||    |||   |||   | |||         | |||||| ||||||||| |||||||||||||| |||||||| |||||||| |||||||||||  |||| || ||||  || ||||||||||| ||  | || |||| | | 
gtagtt---agttgaacaattttgccaagtctttgcttttat-gtttcagcagatggatactctcaaaaacttgct---------tttgtgtttcagCCAATATTACACAAGGTTCAAGTCCTACTGCTGCGAAGCATACAACATTCTGAGGAAGTCCAGCAGTCTCATTTTGAATCTATTCAAGCTGATGGAGCGA

upper sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA04G10090.1 (Glycine max), 3'ss of exon 15
------gtaccttaaaatgatataattcca--tgaatattttgctc-tgagagttgcagcatataagacttgaaaatg-ttggctactttgtattctgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCTCCGGAAATCGAGCAACCTTATTTTGAATCTGTTTCATCTCATGGCGGGT
       |  | | | |||||  | ||     | || | | || |  || ||  || ||| || |       | | || || | | ||||||   |  ||   ||||||||| || ||||||||||| ||||| ||||| ||||| ||||||||||| || ||||| || ||||| ||||||||||| ||| | || |||||||||
gtacagttctcattagatgattcactttagattcaagactgtggttatgtgatctgtagcttaaattgtgaaatagtgatttgtttctttgttccccatg---cagCCAATATTATACAAGGTTCAAGTCCTATTGTTGTGAAGCATACAACATTCTTCGCAAATCCAGTAACCTAATTTTGAATCTATTTTACCTAATGGCGGGT

upper sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA06G10090.1 (Glycine max), 3'ss of exon 15
------gtaccttaaaatgatataattcc-atgaatattttgctctgagagttgcagcatataagacttgaaaatgttggctactttgtattctgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCTCCGGAAATCGAGCAACCTTATTTTGAATCTGTTTCATCTCATGGCGGGT
       |  | |   |||||  | ||   ||  |    | | | || ||  || ||| ||    | |   ||||  ||| |  ||| | |       ||||||||||| || ||||||||||| ||||| ||||| ||||| ||||||||||| || ||||| || ||||| ||||| ||||| ||| |  | |||||||||
gtacagttctcattggatgattcactttagattcaagagtggttgtgcgatctgtagctta---aattgtgaaatagtggttgatttctttgtccctatgcagCCAATATTATACAAGGTTCAAGTCCTATTGTTGTGAAGCATACAACATTCTTCGCAAATCCAGTAACCTAATTTTAAATCTATTTTACTTAATGGCGGGT

upper sequence: AT1G60490.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv01s0127g00430.t01 (Vitis vinifera), 3'ss of exon 15
----------------------------------------------------------------------------------------gtaccttaaaatgatataattccatgaatattttgctctgagagttgcagcatataagacttgaaaatgttggctactttgtattctgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCTCCGGAAATCGAGCAACCTTATTTTGAATCTGTTTCATCTCATGGCGGGT
                                                                                         || | ||  |    || |||    |||  || |  | ||  | |   |   ||  |  |   |      ||| |  ||    || | |  ||||||| |||||| || |||||||||||||| ||||| ||||| ||||| || ||||| ||||| || ||||| |||||||||||||| ||||| |||||||||
gtatcattactatgggagaaaataaccttttttgagcctttggtcttttgttttatgtcacctttgctggatgagattccatgagatgttaacataccactgcatgattttgggaaccttattttgtggcaatgcgatattaccatgccaaatgcaaatggttcattacacttttcttctgcagCCCATACTATACCAGGTTCAAATCCTATTGTTGTGAAGCATACAATATCCTCCGCAAATCTAGTAACCTCATTTTGAATCTGTTCCATCTGATGGCGGGT

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|116420811|gb|EG463403.1|EG463403
EST:     CCTATGAAACTCTGCAAAGAAATGGTGGAAGCCATGGGCGGAGCAGAAAG                         CCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCT
genomic: CCTATGAAACTCTGCAAAGAAATGGTGGAAGCCATGGGCGGAGCAGAAAGgtaccttaaa ... tgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCT
EST: gi|86087546|gb|DR383305.1|DR383305
EST:     CCTATGAAACTCTGCAAAGAAATGGTGGAAGCCATGGGCGGAGCAGAAAG                         CCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCT
genomic: CCTATGAAACTCTGCAAAGAAATGGTGGAAGCCATGGGCGGAGCAGAAAGgtaccttaaa ... tgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagttgcagcatataagacttgaaaatgttggctactttgtattctgtgttgcagCCAATACTACACAAGGTTCAAATCCTACTGTTGCGAAGCCTACAACATTCTCCGGAAATCGAGCAACCTTATTTTGAATCTGTTTCATCTCATGGCGGGT
          atataaga  TA-rich tract