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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGAAGAGCAACTTTAAAATAACAAGTAATGAAGAGATGGAAGTTGCACACTCTGGGCAGTATCTTCTCAATCTTCCCATCAAAGTTGATGAGTCTAAGgtttgtttaaacaaactttcactaatgcttgtgtgttgccgggattcttataaaatagttttcttgcttttggtggatgaag

Basic information

species Arabidopsis thaliana
transcript AT3G19340.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os12g29550.1 (Oryza sativa), 5'ss of exon 4
GGAGAAGAGCAACTTTAAAATAACAAGTAATGAAGAGATGGAAGTTGCACACTCTGGGCAGTATCTTCTCAATCTTCCCATCAAAGTTGATGAGTCTAAGgtttgtttaaacaaactttcactaatgcttgtgtgttgccgggattcttata-aaatagttttcttgcttttggtggat-gaag
||| ||||||||||| ||  |   |  | ||||||||   || |||||||| |||||  | |||||||| || |||||||| |||||||||||| ||||||| ||     |    ||||   | | ||   |||  ||    | ||| | |    ||   |   ||| ||| | || || | ||
GGAAAAGAGCAACTTCAAGTTGTTATCTGATGAAGAGTATGATGTTGCACAATCTGGAAAATATCTTCTAAACCTTCCCATAAAAGTTGATGAGCCTAAGgtctggaactatggccttt---tcaagc--atgtactgtaacgtttcatgttcggatgactgaattgatttcgttgaattgtag

upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g70390.1 (Oryza sativa), 5'ss of exon 4
GGAGAAGAGCAACTTTAAAATAACAAGTAATGAAGAGATGGAAGTTGCACACTCTGGGCAGTATCTTCTCAATCTTCCCATCAAAGTTGATGAGTCTAAGgtttgtttaaacaaactttcactaatgcttgtgtgttg----ccgggattcttataaaatagtttt----cttgcttttggtggatgaag
| | || ||||| || || |||  |    |||| ||| | ||  |||| || ||||| || ||||| || |||||||||||||||||||||||  | ||||||    |   |   ||        ||      | |      |   |  | | | || ||  || |     ||| ||||    | || ||
GCAAAAAAGCAATTTCAACATATTATCAGATGATGAGGTTGAGCTTGCTCATTCTGGACAATATCTGCTGAATCTTCCCATCAAAGTTGATGAAGCAAAGgttaacatcctctccctccaggctgtgtcctaatctaaaaatcattggatttgacaatattattgtaaaatttgttttttactggtgcag

upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G011136_T03 (Zea mays), 5'ss of exon 4
GGAGAAGAGCAACTTTAAAATAACAAGTAATGAAGAGATGGAAGTTGCACACTCTGGGCAGTATCTTCTCAATCTTCCCATCAAAGTTGATGAGTCTAAGgtttg-------tttaaacaaactttcactaatgcttgtgtgttgccgggattcttata----aaatagttttcttgcttttggtgga-tgaag
||| ||||||||||| ||  |   |    |||||||| | ||  |||| || |||||  | ||| |  | |||||||| |||||||||||||| |||||||||||       |||| | |||  || |   |  |||      |  |  || |  |||       |   | |  |||||     || | || ||
GGAAAAGAGCAACTTCAAGTTGCTATCAGATGAAGAGTTTGATATTGCGCAATCTGGAAAATATTTGTTGAATCTTCCGATCAAAGTTGATGAATCTAAGgtttgatttttttttacagaaaaattaaaatagacttagtaacttacatgactagtattttgttgacgatctatttgctaaccttgaaatgcag

upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA16G05180.1 (Glycine max), 5'ss of exon 4
GGAGAAGAGCAACTTTAAAATAACAAGTAATGAAGAGATGGAAGTTGCACACTCTGGGCAGTATCTTCTCAATCTTCCCATCAAAGTTGATGAGTCTAAGgtttgtttaaacaaactttcactaatgcttgtgtgttgccgggattcttataa--aatagttttcttgcttttggtggatgaag
||| ||||||||||| || |||   |   |||| ||||| || |||||||| || || ||||||||||| ||||||||||| |  |||||||| ||||||||||||  | |    | |    || |     ||  |      | | || |||     |  | |   |  ||||| || ||||||
GGAAAAGAGCAACTTCAAGATAGTGACGGATGATGAGATTGATGTTGCACATTCAGGCCAGTATCTTCTAAATCTTCCCATAACGGTTGATGAATCTAAGgtttgtgcataatggcatatggtacttgagatgcttgattttgctgctaatagttgctgatgtgtgtatttttgctg-atgaag

upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G27800.1 (Glycine max), 5'ss of exon 4
GGAGAAGAGCAACTTTAAAATAACAAGTAATGAAGAGATGGAAGTTGCACACTCTGGGCAGTATCTTCTCAATCTTCCCATCAAAGTTGATGAGTCTAAGgtttgttta-aacaaactttcactaatgc---------ttgtgtgttgccgggattcttataaaatagtt-------ttcttgcttttggtggatgaag
||| ||||||||||| || |||   | | |||| ||||| || |||||||| || || || |||||||| ||||||||||| |  |||||||| ||||||||||||  | || ||   | |  |||||             || | |||  |  ||       |||||||       |   |  |||| |  |||||||
GGAAAAGAGCAACTTCAAGATAGTGACTGATGATGAGATTGATGTTGCACATTCAGGCCAATATCTTCTAAATCTTCCCATTACTGTTGATGAATCTAAGgtttgtgcataataatgctcctttaatggaaaatggtaccttgagatgcttgattttgctgctaatagttgctgatgtctgtattttttgctgatgaag

upper sequence: AT3G19340.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0068g01000.t01 (Vitis vinifera), 5'ss of exon 4
GGAGAAGAGCAACTTTAAAATAACAAGTAATGAAGAGATGGAAGTTGCACACTCTGGGCAGTATCTTCTCAATCTTCCCATCAAAGTTGATGAGTCTAAGgtttgtttaaacaaactttcactaatgcttgtgtgt-tgccgggattcttataaa-atagttttcttgcttttggtggatgaag------------------------------------
||||||||||||||| || ||| ||| | | |||||||| || ||||| | ||| ||||||||||| || ||||||||||||| ||||||||| || ||||||| |    || || ||  || | | |     | | |   |  ||   |||| | || || |  || ||  || |      |                                     
GGAGAAGAGCAACTTCAAGATAGCAACTGAGGAAGAGATTGATGTTGCTCTCTCAGGGCAGTATCTCCTAAATCTTCCCATCACAGTTGATGAATCCAAGgtttctaattactaatttaaacaagtacagaaatatctattgatatatatatatatattgtctattttctcatgttcatcacatttgctgatcccattgttgttttcttaatggctgtag

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|125245611|gb|EL259696.1|EL259696
EST:     CAAAGTTGATGAGTCTAAG                         CTTGACAAGAAGCTGCTCAAGAGGTATTTTGAGGAGCATACCAC
genomic: CAAAGTTGATGAGTCTAAGgtttgtttaa ... gtggatgaagCTTGACAAGAAGCTGCTCAAGAGGTATTTTGAGGAGCAT-CCAC
EST: gi|124849753|gb|EH934190.1|EH934190
EST:     ACTCTGGGCAGTATCTTCNCAATCTTCCCATCAAAGTTGATGAGTCTAAG                         CTTGACAAGAAG
genomic: ACTCTGGGCAGTATCTTCTCAATCTTCCCATCAAAGTTGATGAGTCTAAGgtttgtttaa ... gtggatgaagCTTGACAAGAAG