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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACGCTTGGAGCAGAATTAGCAAGATACCGGATGAAGCCCCGAGTGTACATTGGTTGCATGAAATCTGGACCTGTTCTTGCTCAGAAgtaagttgttcaccttccttcaagagaccactcctcatttttaatgtttgtctcactttcatctctctctgaaatttccaattttag

Basic information

species Arabidopsis thaliana
transcript AT4G26940.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os03g38050.1 (Oryza sativa), 5'ss of exon 8
CCACGCTTGGAGCAGAATTAGCAAGATACCGGATGAAGCCCCGAGTGTACATTGGTTGCATGAAATCTGGACCTGTTCTTGCTCAGAAgtaagttgttcaccttccttcaagagaccactcctcatttttaatgtttgtctcactttcatctctctctgaaatttccaattttag
| || |||||      ||| || |   | |||  |||||| ||||  ||||||||||||||||||||||| || || || ||||||||||||||    ||  ||  |   |       ||     |||| ||    || |  | |  ||  |   | |  | | ||         
CAACTCTTGGTAACATATTGGCTAAGCATCGGTCGAAGCCTCGAGCTTACATTGGTTGCATGAAATCTGGTCCAGTCCTGGCTCAGAAgtaagtc--ccatgttgttgtcatgtcttccttgatgttttaaacagctgaccaaataccaatttgttttttattctcag-------

upper sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 9
CCACGCTTGGAGCAGAATTAGCAAGATACCGGATGAAGCCCCGAGTGTACATTGGTTGCATGAAATCTGGACCTGTTCTTGCTCAGAAgtaagttgttcaccttccttcaagagaccactcctcatttttaatgtttgtctcactttcatct--ctctctgaaatttccaattttag-----------------
| || ||||||      ||| | |   |     |||||||| |||| || ||||| |||||||||||||||||||| ||  || ||||||||||   |||| |   || ||  |     | ||   |   ||||| |   |  ||||  ||   | |||  || || | || ||| |                 
CAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATATTGGATGCATGAAATCTGGACCTGTCCTAACTGAGAAgtaagtgcatcacatggttttaactg-----ttctttctgacaatgtctcctttccttttctcatgccctcaaaatttgctaagttttgttaacccttgtctccag

upper sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G132866_T02 (Zea mays), 5'ss of exon 7
CCACGCTTGGAGCAGAATTAGCAAGATACCGGATGAAGCCCCGAGTGTACATTGGTTGCATGAAATCTGGACCTGTTCTTGCTCAGAAgtaagttgttcaccttccttcaagagaccactcctcat-----ttttaatgtttgtc----tcactttcatctctctctgaaatttccaattttag
| ||||| |||       |  | | | |     |||||||  |||||||||| || ||||||||||||||||||||  |  |  | ||||||| |    | |||      |||| |||   ||| |     |  |||| ||  |     |   |  ||  | | | ||       | | |  ||
CAACGCTCGGACAGATTCTGTCGAAACATGCATTGAAGCCGAGAGTGTACATCGGATGCATGAAATCTGGACCTGTCTTATCCGAAAAgtaagct---tatcttgtgggcagagtccaggtctcttgaggatagtaattttgctgaaagttgttgacacatgtttgtgcttccctccactccag

upper sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv19s0090g00560.t01 (Vitis vinifera), 5'ss of exon 8
CCACGCTTGGAGCAGAATTAGCAAGATACCGGATGAAGCCCCGAGTGTACATTGGTTGCATGAAATCTGGACCTGTTCTTGCTCAGAAgtaagttgttcaccttccttcaagagaccactcctca------tttttaatgtttgtctcactttcatctctctctgaaatttccaattttag
| || || ||||||   ||||| ||  ||||    || ||  |  | |||||||| ||||||||||||||||||||||| ||||| |||||||     ||| ||| |  ||     ||    |||      |||  |  | || |   |  ||  | | ||||    ||   ||       
CAACACTGGGAGCAACTTTAGCGAGGCACCGTTCAAAACCTAGGATTTACATTGGATGCATGAAATCTGGACCTGTTCTAGCTCAAAAgtaaga----cacattcttataattcttcatctttcagatagatttcaagagattctaaaatgtttctgtttctcccttatgaacag------

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|116459771|gb|EG502363.1|EG502363
EST:     CCCCGAGTGTACATTGGTTGCATGAAATCTGGACCTGTTCTTGCTCAGAA                         AGGAGTGAGATATCATGAACCCGAATACTGGAAATTTGGAGAAGAGGGTAA
genomic: CCCCGAGTGTACATTGGTTGCATGAAATCTGGACCTGTTCTTGCTCAGAAgtaagttgtt ... ccaattttagAGGAGTGAGATATCATGAACCCGAATACTGGAAATTTGGAGAAGAGGGTAA