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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatccatcttatcctatcttcttctccttctgtgacctaactagtttcgatattttaaaaagtatgggaacaggtcaatgattaaccgtaaaacagctttatataacttcaattgtcatattttttcag

Basic information

species Arabidopsis thaliana
transcript AT3G20290.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20290.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 5'ss of exon 9
AACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatccatcttatcctatcttcttctccttctgtgacctaactagtttcgatattttaaaaagtatgggaacaggtcaatgattaaccgtaaaacagctttatataacttcaattgtcatattttttcag
| ||||||||||||||| || || ||||| ||| | |||||||| || |||||||||||||| |||||||| |||||||| || ||  | | ||||||||| ||           |||  | | | ||| |||||||      ||   ||  |  |||||||  |   | |    |||  |      ||  |   |||| |   | | |  |  | | ||||  |  | || |||
AGCAGTGATTTCGATGCGAAGCCAATGGTCATGTTGCTGGGTCAGTATTCCACAGGAAAAACCACATTCATAAAGCATTTACTGAAGACAAATTATCCAGgtaaacaggatgaaatattgtgt-tccttttccttct------tattgagaatt-atattttccattctctttctacacatt-----ttcccttgaaaaaaatgtaacaatatctgagttgt--ttctcttgcag

upper sequence: AT3G20290.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G065012_T03 (Zea mays), 5'ss of exon 9
AACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatccatcttatcctatcttcttctccttctgtgacctaactagtttcgatattttaaaaagtatgggaacaggtcaatgattaaccgtaaaacagctttatataacttcaattgtcatattttttcag
| ||| ||||||||||| || || ||||| |||||  |||||||||||||||| || |||||||||||||| |||||||| || ||| | | |||||||||  |   |   |  |    |   |   || | ||| | |  | | | || |||  | |   |  ||  ||   | |   | |||| | |    ||  |                                     
AGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATCCAGgtgaaacaataacatggatca--cccattgttcttgtatcccatcattactttgaacaaactttaatttaccagtatctg-caat-actccttgtgcag------------------------------------

upper sequence: AT3G20290.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA18G10150.1 (Glycine max), 5'ss of exon 8
AACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatccatcttatcctatcttcttctccttctgtgacctaactagtttcgatattttaaaaagtatgggaacaggtcaatgattaaccgtaaaacagctttatataacttcaattgtcatattttttcag
    |||| || ||||| |||||||||||  ||||| ||||||||||||| || || ||||||||||| ||||||||| ||||||||   | |||||||||||||| || |  |  | | |    | || |  || | |||    | |        ||| |    ||| ||| |||  | | ||   |||||| |   |      |  |   |                      
----GTGACTTTGATGCCAAACCTATGGTTTTGCTTTTGGGTCAATACTCAACTGGGAAAACAACATTTATTAAGCATATGCTTAAAAGCAGTTATCCAGGCAAgtgattctcccaaccttgatatattttaattatatga---gaatgaccatcttatgt----aagaatgagaatggatgaac--ttaaccattcgattaaaatgaaaggc----------------------

upper sequence: AT3G20290.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA02G46350.2 (Glycine max), 5'ss of exon 9
AACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatccatcttatcctatcttcttctccttctgtgac---ctaactagtttcgatattttaaaaagta--tgggaacaggtcaatgattaaccgtaaaacagctttatataact---------tcaat-------tgtcatattttttcag--------------------------------------------
|| ||||| || ||||| ||||| ||||| |||||| ||||||| ||||| || || ||||||||||| || || ||| ||||||||  || ||||||||||| || || |  |||   |||| | | | |   | | || |    |   ||  |  ||| | | || || ||  |   ||    |  ||   |     | ||    |||| || || |         | |||       | | | || |||| |                                             
AATAGTGACTTTGATGCCAAACCAATGGTTATGCTTTTGGGTCAGTACTCAACTGGTAAAACAACATTTATCAAACATCTGCTTAAAAGTAGTTATCCAGgcacgtgattctcctttctctatatccatatatgtatatgtcacattgcttatatctgatttatgaagaaataattttaaatgcatttatttattttatttaatattctttgtaaaattgtaggatgattaataggatgatataacatatttttaaaatgttattaatctttgtcttgtttttcccataaatgttgatag

upper sequence: AT3G20290.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv19s0090g01130.t01 (Vitis vinifera), 5'ss of exon 9
AACAGTGATTTCGATGCAAAACCTATGGTAATGCTTCTGGGTCAATACTCCACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatccatcttatcctatcttcttctccttctgtgacctaactagtttcgatattttaaaaagtatgggaacaggtcaatgattaaccgtaaaacagctttatataacttcaattgtcatattttttcag
|| || ||||| ||||| ||||||||||| |||||| ||||||||||||| || |||||||| || |||||||| |||||||| ||   || |||||||||  | ||||   |  | ||  | ||||  |||||| || | |      |  |||     ||      || |   |     |  ||  | ||| |                                         
AATAGCGATTTTGATGCCAAACCTATGGTTATGCTTTTGGGTCAATACTCAACTGGAAAAACTACTTTCATTAAACATTTGCTGAAGAGTAGTTATCCAGgtgaattatt-gttctctcacaccttcc-ctccttgtgcgcctgtgaaaaattcagctctt------gtttattattttcttcattttgaacag-----------------------------------------

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|125133618|gb|EL174993.1|EL174993
EST:     TTAAGCATTTGCTTAAATCTACTTATCCAG                         GAGCTCATATTGGACCAGAGCCGACTACTGACAGATTTGTTGTTG
genomic: TTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatc ... attttttcagGAGCTCATATTGGACCAGAGCCGACTACTGACAGATTTGTTGTTG
EST: gi|125301204|gb|EL315289.1|EL315289
EST:     CACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAG                         GAGCTCATATTGGACCAGAGC
genomic: CACAGGAAAAACAACATTCATTAAGCATTTGCTTAAATCTACTTATCCAGgcaagttatc ... attttttcagGAGCTCATATTGGACCAGAGC