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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAGTTCTCATGTTTGGTTATGGAGTTCTGTCCTGGAGGTGACTTGCATACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgtaaaaacattttgaataatcagtttcatgttttgcatccaagataccactttttttttttttttgttaaaatcatattggctttgtttacattttccag

Basic information

species Arabidopsis thaliana
transcript AT4G26610.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os08g38320.2 (Oryza sativa), 5'ss of exon 2
AGAAGTTCTCATGTTTGGTTATGGAGTTCTGTCCTGGAGGTGACTTGCATACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgta----aaaacattttgaataatcagtttcatgttttgcatccaagataccacttttttttt----ttttttgttaaaatcatattggctttgtttacattttccag
| ||||||||||| ||||||||||||||||| || ||||| ||| |||| || ||||||||||| ||||| || ||||  || ||||| ||||||||||||||    | |||   |  |||  ||  ||   | |     ||   | |||||| ||| | |||    |||     ||  ||||||      |  ||||  ||      
ATAAGTTCTCATGCTTGGTTATGGAGTTCTGCCCAGGAGGGGACCTGCACACTCTTCGACAAAGGCAGCCTGGAAAGCATTTCTCAGAGCAAGCAGCAAAgtatgtgacaactactcaaat--tccattcattatcagatataacacataccattttgtctttgaggtttacaagtatgatcatac--atataatttatgttcc----

upper sequence: AT4G26610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os06g18830.1 (Oryza sativa), 5'ss of exon 2
AGAAGTTCTCATGTTTGGTTATGGAGTTCTGTCCTGGAGGTGACTTGCATACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgtaaaaacattttgaataatcagtttcatgttttgcatccaagataccactttttttttttttttgttaaaatcatattggctt--tgtttacattttccag----
| |||||||||||  ||||||||||||| || ||||| || ||| ||||||| ||||||||||| ||||  || |||   ||| |||||||||| |  |||||   |   |||    |||      |||| |   |||     |||||    |  | || |     | |  ||| | ||   ||  |||||   | ||||      
ATAAGTTCTCATGCCTGGTTATGGAGTTTTGCCCTGGTGGAGACCTGCATACTCTTCGACAAAGGCAGCGTGGCAAGTATTTTCCAGAACAAGCTGTCAAgtacgtatgatttactcaatgca---catgatacacatt---aataccttggtactcttgtagggttcactatctttttcatttgttgtttttctgttccgataaa

upper sequence: AT4G26610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os09g30150.3 (Oryza sativa), 5'ss of exon 2
AGAAGTTCTCATGTTTGGTTATGGAGTTCTGTCCTGGAGGTGACTTGCATACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgtaaaaacattttgaata--atcagtttcatgttttg-catccaagataccactttttttttttttttgttaaaatcatattggctttgtttacattttccag
| || || |||||| |||| ||||| ||||| |||||||| ||| | || || ||||||||||| ||||| || || |  |||||||| ||||||||||||||    | | ||   |   || | |||     | |  ||||    |||     ||   |   |  | ||     |  |||| ||  | |   ||| |  | |
ATAAATTTTCATGTCTGGTGATGGAATTCTGCCCTGGAGGGGACCTCCACACTCTTCGACAAAGGCAGCCTGGAAAACATTTTTCAGAGCAAGCAGCAAAgtatgttcttcttctttttcataaatttatcactatatcatcatgaataatttgttgactaaatgctagtatgtgtactattagcagtat---catctctctg

upper sequence: AT4G26610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os02g49310.1 (Oryza sativa), 5'ss of exon 2
AGAAGTTCTCATGTTTGGTTATGGAGTTCTGTCCTGGAGGTGACTTGCATACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgtaaaaacattttgaataatcagtttca----tgttttgcatccaagataccactt---tttttttttttttgttaaaatcatattggctttgtttacattttccag
| |||||||||||  |||| ||||||||||| || ||||| ||| ||||||||||| | || || ||||| || ||    ||| |||| ||||| |  |||||      |||| |  | |   ||  |       |||   ||||   ||||   |   | |  ||       | | |   ||  ||  ||| || | ||||     
ACAAGTTCTCATGCCTGGTGATGGAGTTCTGCCCAGGAGGAGACCTGCATACCCTTAGGCAGAGGCAGCCGGGCAAATATTTTCCAGAGCAAGCTGTCAAgtatg--tcttttcaccatttctttcaaaaatctgtttatctccattttaccttctgcatgtacttcaccacctaacagaaatggtgattttcttaaaattt-----

upper sequence: AT4G26610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: AC217842.3_FGT001 (Zea mays), 5'ss of exon 1
AGAAGTTCTCATGTTTGGTTATGGAGTTCTGTCCTGGAGGTGACTTGCATACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgtaaaaacattttgaataatcagtttcatgttttgcatcc---aagataccactttttttttttttttgttaaa-atcatattggctttgtttacattttccag
| ||||||||||| ||||| ||||||||||| |||||||||||| | ||||||||  | ||||  ||||| || |||   ||  | |||||||| || ||||||   |  | |    ||    | |   | | | |||||     | |      ||  |||      || |||| |   |  ||| |   ||   |        
ATAAGTTCTCATGCTTGGTGATGGAGTTCTGCCCTGGAGGTGACCTACATACCCTAAGGCAAAAGCAGCCTGGCAAGTATTTCCCTGAACAAGCTGCCAAgtaagttctctgtttccaactgttcttgagctcttcatccttttgggtgaagtattcatttggcacatgctaaacactgtgatggatagtttggtacccc----

upper sequence: AT4G26610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G464985_T01 (Zea mays), 5'ss of exon 2
AGAAGTTCTCATGTTTGGTTATGGAGTTCTGTCCTGGAGGTGACTTGCATACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgtaaaaacattt-tgaataatcagtttcatgttttgcatccaagataccactttttttttttttttgttaaaatcatattggctttgtttacattttccag-
| ||||| ||||| ||||||||||| ||||| |||||||| ||| | || || ||||| ||||| ||||| || ||    |||||||| ||||||||||||||   ||   |   ||| || ||||  || | |||| |  ||    |   ||   |||||||||      | |  | |     || | | ||  |      
ATAAGTTTTCATGCTTGGTTATGGAATTCTGCCCTGGAGGGGACCTTCACACTCTTCGCCAAAGGCAGCCTGGAAAATATTTTTCAGAGCAAGCAGCAAAgtatgtactcctgcaaatgataagttcaatatcttgcgt--aattcgctggttagctttttttttaccaggagttgtgtaatgcttatctgcaggtcaacac

upper sequence: AT4G26610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G026065_T01 (Zea mays), 5'ss of exon 2
AGAAGTTCTCATGTTTGGTTATGGAGTTCTGTCCTGGAGGTGACTTGCATACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgtaaaaacattt-tgaataatcagtttcatgttttgcatccaagataccactttttttttttttttgttaaaatcatattggctttgtttacattttccag----
| ||||| ||||| || |||||||| ||||| |||||||||||| | ||||| ||||| ||||| || || || ||    || ||||| ||||||||||||||   || | |   ||| |  ||||  || | ||||||  ||    |   ||   |||||| |  |    | | ||       || | | ||  |         
ACAAGTTTTCATGCTTAGTTATGGAATTCTGCCCTGGAGGTGACCTTCATACTCTTCGTCAAAGGCAACCTGGAAAATATTTCTCAGAGCAAGCAGCAAAgtatgtacttctgctaatgacaagttcaatatattgcat--aattagctggttagcttttttatcag---gagttatgcgatgcttatctgcaggtcgacatgtt

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|124737737|gb|EH829139.1|EH829139
EST:     ACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAA                         GTTTTATGTAGCGGAAGT
genomic: ACCCTTCGACAAAGACAGCCCGGGAAGCGATTTTCAGAACAAGCAGCAAAgtaaaaacat ... cattttccagGTTTTATGTAGCGGAAGT
EST: gi|125116385|gb|EL165947.1|EL165947
EST:     AGAACAAGCAGCAAA                         GTTTTATGTAGCGGAAGTACTTCTTGCAATGGAATATCTTCATATGCTTGG
genomic: AGAACAAGCAGCAAAgtaaaaacat ... cattttccagGTTTTATGTAGCGGAAGTACTTCTTGCAATGGAATATCTTCATATGCTTGG