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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