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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttgtttctccacgatttttttttttttttttttgagttattattagttggtaatgtaaagttgttgatgttgtgggcttgtgttttttactgcag

Basic information

species Arabidopsis thaliana
transcript AT5G01460.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttgtt-------------tctccacgatttttttttttttttttttgagttattattagttggtaatgtaaagttgttgatgttgtgggcttgt-gttttttactgcag
| ||||||   || ||||| ||||| ||||| |  ||||| || || |||||| || ||||||||||||| ||||| | ||| || ||||||||||||||||  ||              | |||||  |||  | | |    ||    |  |  |  ||     | |   || |||||||||    |  |  ||| |||  || ||||||
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM5G871262_T02 (Zea mays), 5'ss of exon 1
CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgt---ttgtttctccacgatttttttttttttttttttgagttatt-attagttggtaatgtaaagttgttgatgttgtgggcttgtgttttttactgcag
| |||| |   || ||||| | ||||||||| |||||||| || || |||||| || ||||||||||||| ||||| | ||| || ||||||||||||||||    |    | || || | |||   |   || | ||     ||   |  | || | || |  |   |       ||  |                    
CCATGAGGACGCTCTGGCTCGTCGTTTACATCGTTGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCAATGTTCTACTACGAGGGCGACCAGGACAAgtaacctcacccccctcgctgtttccctaccttctcttcttccatccgtccgctgatgatttggacccgccttccctgcag--------------------

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 1
CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttg--tttctccacgatttttttttttttttttttgagttattattagttggtaatgtaaagttgttgatgttgtgggcttgtgttttttactgcag
| |||||||| || ||||| ||||| |||||  | |||||||| || ||||| ||| | ||||||||||| ||||| ||||| || ||||||||||||||||  |  ||| |   |  || |||  ||  ||  ||  |  ||| |  | |||  |||| || |||||    |||   ||||| |||| | | | |   
CCATGAAGGACCTCTGGCTCGCCGTCTACATCCTCGACGCTGTCCTCGTCTTTTTCGTTATCCCCTTCGCCATGTTCTTCTACGAGGGCGACCAGGACAAgtacgagttttttttcttttctttcgttggttgcttcaaaatatcaccatttg--aatgaaatgttgtattggtttgtggctt-tgttgtgtgcag---

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA03G07890.1 (Glycine max), 5'ss of exon 1
CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttgtttctccacgatttttttttttttttttttgagtta--ttattagttggtaatgtaaagttgttgatgttgtgggcttgt-gttttttactgcag---------------------------------------------
| |||||||| || ||||| ||  |||||||  | ||||| || || ||||||||| ||||||||||||| ||||| | ||| |||||||||||||||||||  || | |    | |  |||||  |||||     | |||  || |  | |  | |  ||  |   |||||  | || |||  | |  |  ||    |                                              
CCATGAAGGACCTCTGGCTCGCAATTTACATCCTCGACGCCGTCCTCGTCTTCTTCGTCATCCCCTTCGCCATGTTCTACTACGAAGGCGACCAGGACAAgtaagtgtat--gtggtgctttttaatttttaaaaaatttaagttttgtgattattagatactgaaattgatactttgtgctaatagcatggtaacaaaaaaaatactgaaattgaaaatgtgttgtgattttgggaatgtgcag

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 1
CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttgtttctccacgatttttttttttttttttttgagttattattagttggtaatgtaaagttgttgatgttgtgggcttgtgttttttactgcag
| |||||||| || ||||| || || |||||  | ||||| || || ||||||||| ||||||||||||| ||||| ||||| || ||||||||||||||||  |    |      || || || |||    ||||| |  |  | |  || |   ||    |||   |||   ||   |||||  |||   |||||
CCATGAAGGACCTCTGGCTCGCAGTCTACATCCTCGACGCCGTCCTCGTCTTCTTCGTCATCCCCTTCGCCATGTTCTTCTACGAGGGCGACCAGGACAAgtacgaggttt-----ttgttattgtttgaaatttgaatcttcgtcaagtgttt-cgtgggtttg--aatgaaatg--tttgtgactttgtgtgcag

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 1
CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttgtttct-ccacgatttttttttttt--tttttttgagttattattagttggtaatgtaa--agttgttgatgttgtg-ggcttgtgttttttactgcag
| |||||||| || ||||| ||  |||||||  | ||||| || || ||||||||| | |||||||| || ||||| | ||| |||||||||||||||||||  || | |  |  | |  ||||  |||  | |||||   || || ||  |   |  |||||  |  |  |||  |||   |         ||   | |   
CCATGAAGGACCTCTGGCTCGCAATTTACATCCTCGACGCCGTCCTCGTCTTCTTCGTTATCCCCTTTGCCATGTTCTACTACGAAGGCGACCAGGACAAgtaagtgtatgtcgtggtgcttttaatttgatgtttttttttttttgtttttaatttttgtaatcatatactgaaattgaacgaaccagacgttggtccg---

upper sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 1
CTATGAAGGATCTTTGGCTTGCCGTTTACATTGTTGACGCTGTGCTTGTCTTCTTCATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttgtttctccacgatttttttttttttttttttgagttattattagttggtaatgtaaagttgtt--gatgttgtgggcttgt-gttttttactgcag-
| |||| |||||| ||||| ||| ||||||||||||| ||||| || || |||||  | || |||||||| ||||| | ||| |||||||||||||||||||  | | ||  | | ||| | ||  | ||  |  || ||  ||||  |   |    || ||||| |  | || || | |  ||  |     ||    |  
CGATGAGGGATCTGTGGCTCGCCATTTACATTGTTGATGCTGTACTCGTATTCTTTGTTATTCCCTTCGCCATGTTCTACTACGAAGGCGACCAGGACAAgtc-ggtactttagggtttctattaatattgctgagatttcgtatttctccttttgttagagttgattggttgctgcgagactgaaggaaaataaaataaa

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|124915447|gb|EH989321.1|EH989321
EST:     TCTTCTATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAA                         GGCTCTTGGGAAGAGGATAAAGAGTGCTTTGA
genomic: TCTTC-ATCATCCCCTTCGCTATGTTTTTCTATGAAGGCGACCAGGACAAgtttgtttct ... tttactgcagGGCTCTTGGGAAGAGGATAAAGAGTGCTTTGA