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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattgatttgcttctggttcattcgcatacaaatctcagacgaatattaatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAGGAAGCAGGCCGAAATGGAATCCCAAAGCCTGATGCTTCCATCGCGAGCA

Basic information

species Arabidopsis thaliana
transcript AT1G15290.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: LOC_Os04g55230.1 (Oryza sativa), 3'ss of exon 20
gtgattgatttgcttctggttcattcgcatacaaatctcagacgaatattaatttcttactagcaaagtaacaa--agtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAGGAAGCAGGCCGAAATGGAATCCCAAAGCCTGATGCTTCCATCGCGAGCA
                                              | ||  || | | | |   | | ||  |  |||  |  |  ||   | |          | || |   |    ||||  ||    |||||||||||||||||||| || |||||||| |||| |||  |||| || || || || | |||||  || |||||||| |||||  | || || || ||||
---------------------------------------------gttttttttcccttcaaaatatgcaatgacgagtccaaatactgctatgttctcttggactattagacatgataattttcctgctgcagGATGCTGCTGCATGGCTTGAGTATTTTGAGTCAAAAGCATTAGAACAACAAGAGGCCGCCCGAAGGGGCATCCCAAAACCTGACTCATCTATTGCAAGCA

upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GRMZM5G892758_T01 (Zea mays), 3'ss of exon 3
gtgattgatttgcttctggttcattcgcatacaaatctcagacgaatattaatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAGGAAGCAGGCCGAAATGGAATCCCAAAGCCTGATGCTTCCATCGCGAGCA
                                                     |||||  |  ||  |||  |||    | | | |  |||| ||      | ||  |     |   | || ||  |  |||||||||||||||||||| ||||||||||| |||| |||  |||| || || || || | |||||  || || ||||| |||||| | || || || || |
----------------------------------------------------gttctttttctcagcgtacaaaaacataggatatatactccgatgttctcttgaattaacacattacttttcgat-gcagGATGCTGCTGCATGGCTAGAATATTTTGAGTCAAAAGCATTAGAACAACAAGAGGCTGCCCGAAGAGGCATGCCAAAACCTGATTCATCTATTGCAAGTA

upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GRMZM2G086030_T01 (Zea mays), 3'ss of exon 20
gtgattgatttgcttctggttcattcgcatacaaatctcagacgaatattaatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAGGAAGCAGGCCGAAATGGAATCCCAAAGCCTGATGCTTCCATCGCGAGCA
                                                    ||  ||  |       ||  ||| |  | | | |  |||||||      | ||  |     |   |||    | |  |||||||||||||||||||| ||||||||||| |||| |||  |||| || || || || |  ||||  || || ||||| |||||| | || || || || |
---------------------------------------------------gttcttttttcagggcatataaaaatataggatatatactctgatcttctcttgaattaacacattattg--ttgttgcagGATGCTGCTGCATGGCTAGAATATTTTGAGTCAAAAGCATTAGAACAACAAGAGGCGGCTCGAAGAGGCATGCCAAAACCTGATTCATCTATTGCAAGTA

upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA08G22850.1 (Glycine max), 3'ss of exon 19
----gtgattgatttgcttctggttc----attcgcatacaaatctcagacgaatatt-aatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacat--acatgtttgttttctccatttgtctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAGGAAGCAGGCCGAAATGGAATCCCAAAGCCTGATGCTTCCATCGCGAGCA
     |   |  | || |  | || |    || ||   |  ||| |  | | |  ||| || | |  | | ||||| ||      |  |    ||||  | |   |  |   ||| ||  |        |||  |     |||||||||||||||||||| || ||||||||||||| |||| |||||||||| |||||||    ||||||||  |||||||||||||| ||||| || || |
gtcatttccttttctgatagtagtgctagaatacgtcaaagaatattggtctaggattgaactacgcattggcaaactatggggattgatagattgatttgtttaatgttaccattttcatgaaagttttttccccaatgcagGATGCTGCTGCATGGCTTGAGTATTTTGAATCAAAAGCCCTAGAGCAGCAAGAAGCAGCTAAAAATGGAACTCCAAAGCCTGATGCATCCATTGCAAGTA

upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA07G03250.1 (Glycine max), 3'ss of exon 21
gtgattgatttgcttctggttcattcgcatacaaatctcagacgaatatt-aatttcttactagcaaagtaacaaagt-----gaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAGGAAGCAGGCCGAAATGGAATCCCAAAGCCTGATGCTTCCATCGCGAGCA
|| |||   ||  ||||| ||   | | |    |||    | | |  ||| || |    | | ||||| ||     ||     ||  ||||||     ||  ||     |   ||     |   ||| ||     ||||||||||| || ||||| |||||||||||||||| ||||||||||||||| ||||||     ||||||||  |||||||||||||| ||||| || || |
gtcatttcctt--ttctgattg--tagtactagaattctggtctaggattgaactaagcattggcaaaatatgggggttgatagatggttttggctaatgttaccatttttcatgaaaggtttttttttccaatgcagGATGCTGCCGCGTGGCTTGAATATTTTGAATCAAAAGCCATAGAGCAGCAAGAAGCAACTAAAAATGGAACTCCAAAGCCTGATGCATCCATTGCAAGTA

upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 20
gtgattgatttgcttctggttcattcgcatacaaatctcagacgaatattaatttcttactagcaaagtaacaaagtgaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAGGAAGCAGGCCGAAATGGAATCCCAAAGCCTGATGCTTCCATCGCGAGCA
          |||  |   || |        ||  | |    | ||||  |   | | ||||  | |   | ||| || | ||  | || |    |||   | ||| ||||            |||   |||||||||||||||||||| |||||||||||||||| |||  |||||||||| |||||||   |||||||||  |||||||| ||||| || || || ||||
---------atgcgaccaattgagctaagggcatgttt--agctaatacaa---tgtcacta-tagatacataaaatgga-gtcatcaatt----gacgggcgtgtgtgtt------------ctcatgcagGATGCTGCTGCATGGCTTGAATATTTTGAATCAAAAGCTTTAGAGCAGCAAGAAGCAGCAAGAAATGGAACTCCAAAGCCAGATGCATCTATTGCAAGCA

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|116431561|gb|EG474153.1|EG474153
EST:     CACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAG                         GATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAG
genomic: CACTTCAGATACTTACTGCAAAACTTGGAGCAGATGACCTTCGTACACAGgtgattgatt ... tctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacgttttgaactctgagacatacatgtttgttttctccatttgtctctcacagGATGCTGCTGCATGGCTCGAATATTTTGAATCAAGAGCCATAGAGCAGCAGGAAGCAGGCCGAAATGGAATCCCAAAGCCTGATGCTTCCATCGCGAGCA
                            tttgttttctccattt  CT-rich tract
                            tttgtttt  TA-rich tract