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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG

Basic information

species Arabidopsis thaliana
transcript AT2G14720.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os10g20630.1 (Oryza sativa), 3'ss of exon 11
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgtt--ttatgtaacccgatatcgtc-ttggaattgtatcgattacttgggaaa-attgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG
                                                                                |  | | || || ||  ||  |  | | || ||   |     |  | |||| ||  |||  ||     |  ||| ||     | || |  |    || |||  |||||||||||| ||||||||||| || |||||||||||||||||||||||||| |||   ||||| || || || || |||||||||     | |  
-------------------------------------------------------------------------------atgatcagacctttttcatttcgagatcagaaatgtccaccacatctttatccatagcttatgacctgctaatattaatcccgtgtgctgttt--ctttcagTCATACATGGACTCTGAGATCAGAGCAATCATGGCACAGTACATGCCACTGGACAGTCAAGGGGAGGTGCCAAATCATACAAATGATGAAGAACACCATT

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA01G45380.1 (Glycine max), 3'ss of exon 11
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacat-tgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG
                                                                                ||  || |||  ||  |  ||       || |    ||  | || |   | ||  | ||  |||   |||      |  | ||||  ||| ||| |||||||||||||| ||||| |||||||| || ||||| || || |||||  ||||||||||| | || || || || ||    |||||| || | || | | 
-----------------------------------------------------------------------------aaatcagaacacaagtgaatagtgatgattcatttgtaatttaacttattcagttttataggataaaaaattaatggtatttt-tgttggtggttttgcagCAATACATGGATTCAGAAATCAGAGCAATCATGGCGCAATATATGCCCTTGGACAGCCAAGCAGAAGTTCCAAATCATGTCAATGATCAAAGAGCATGAA

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA10G40340.1 (Glycine max), 3'ss of exon 11
gtaagcttttt---attcatccttc-----tgctattt--ctgttagaagcaaaagattaat--gttttatgttttggttgc-ctgagatgtctcttaaaacatt---gttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgc---tatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG
||||||||| |   ||||    ||      ||||||||     ||||| ||   |  ||| |   || ||   ||   | ||  || |   |    | |||   |    |||  | | | | || |     | | || |  |            ||   |||  ||  ||  |    | ||||  ||  ||| |||  ||| ||||| || || ||||||||||| ||||||||||| |||||  |||||||||||   ||  |    || |||  ||  || ||| | || ||| 
gtaagctttatcacattctcagtttggtgatgctatttgatatttagatgccttattttattcaattctaaaattatatagcattgtggcatgcaatgaaatgattaaatttcgtatcatctgagacttgttagaaactcaaatatgagaacatgacgtttgccatttaccggtatttttgttggtgtttttgcagTCATATATGGATTCTGAAATCAGAGCCATCATGGCACAGTATATGCCCTTGGACAGCCAAGGAGAAATTGTAAATCACGTGAGCGAAGAAAGAGCGTAAA

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA20G27000.1 (Glycine max), 3'ss of exon 11
gtaagcttt-ttat-tcatccttctgctatttctgttagaagcaaaagattaatgttttat---gttttgg---ttgcctgagat-gtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgt------atcgattacttgg----gaaaattgttatgaacttgc---tatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG
||||||||| | |  |  ||  | || |  | || |||||     |       | ||||||    || |     ||   |   || ||  | |  |||   |    ||  ||  || |||| |||  || ||||       || | ||   |     |||| |||  ||  ||  |    | ||||  ||  ||| |||  ||| ||||| || || ||||||||||| ||||||||||| |||||  |||||||||||   || ||    || |||  | | || ||| | || | | 
gtaagctttgtcacattttcagtttggtgatgctattagatatttagatgcctttttttattcaattctaaattttatatagcattgtggcatgcaacga-gaagcattaaattcggtatcatctgagacttgttagaaactcaaatatgagaacatgaaatttgcaatttaccggtatttttgttggtgtttttgcagTCATATATGGATTCTGAAATCAGAGCCATCATGGCACAGTATATGCCCTTGGACAGCCAAGGAGAAGTTGTAAATCACGTGCACGAAGAAAGAGCGTGAA

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 11
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG
                                                         |||||||  |    |||||  |  |  ||   |  |||          | ||||  | ||||  ||| |        || |||  ||||  ||  |  |   ||| |  ||  ||| |||  |||||||||||| ||||||||||| ||||||||||| |||||||| |||||||||||| | || ||||| || ||      ||| || | ||| | | 
--------------------------------------------------------aatgttttaatgagttgagaaattgc--aatgtaaggtt--------gacaatatt-tgttggttttgcact------tttggattattg--attgatgtttcatggt--tgctttttcagTCATACATGGACTCGGAGATCAGAGCTATAATGGCACAATACATGCCCCTGGACAGCCAAACGGAAGTCCCAAATCATGTCTCTGAGGATCATGCATGAA

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S227_69V6.1 (Physcomitrella patens), 3'ss of exon 13
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG-
                                                                       |   |||||||   |||    | | | | |     |   | ||     || ||  |  | |  || |   ||  | | | | ||||         ||||   ||||  |||||||||||| ||||| || || |||||||| |||||||||||||| ||||||  |  ||| ||     ||||   ||  || ||| | |   |   
-----------------------------------------------------------------------ttgcatgtctccacaaatggagatctctct--tttgtactagttcgtaaagtgcttgaacttatttgattaacggattt-agcttgtcggtgctgtgga---acagTCATACATGGACTCGGAGATAAGGGCAATAATGGCGCAGTACATGCCACTCGACAGCTCAAGTGAAGTTAATCACCATCTGACCGAGGAA-GCGTAAAGAC

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ30872 (Selaginella moellendorffii), 3'ss of exon 11
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGA-ACGTGCCTAAG
                                                                                                           |||||   | |  ||||  |     |         |  ||| |  ||| |  |  ||        |  ||   |||||||| || ||||| ||||| || ||||||||||||||||| || |||||||||   || || |   |||||  | | || ||  | ||  |   
--------------------------------------------------------------------------------------------------------gtaatatcaattcgtgattgcttgatccagcaaaacttaacgttctctactggaaactttt-----cctgtagTCTTACATGGATTCGGAGATTAGAGCTATCATGGCACAGTACATGCCGCTCGACAGCCAAAACGATGTGCATCACCACTTGCAAGAGGATGCTTGATTGT-

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ31111 (Selaginella moellendorffii), 3'ss of exon 10
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAA-CGTGCCTAAG
                                                                                                                   |  |   | | ||    | |        ||| |||  |  || | ||      | ||  |||   || ||||| || ||||| ||||| || ||||| ||||||||||| |||||||||||    || ||||    ||||    | || ||| |||    |  
------------------------------------------------------------------------------------------------------------------gtacgtgatctctctggcattcattccggttggtattgagctg-tgtggctgctggttggcagTCTTATATGGATTCGGAGATTAGAGCGATCATGGCGCAGTACATGCCTCTGGACAGCCAGAACGAAGTCCACCGCCACCTCGAGGAGGAAGCGTAGTGAT-

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ06539 (Selaginella moellendorffii), 3'ss of exon 10
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAA-CGTGCCTAAG
                                                                                                                   |  |   | | ||    | |        ||| |||  |  || | ||      | ||  |||   || ||||| || ||||| ||||| || ||||| ||||||||||| |||||||||||    || ||||    |||     | || ||| |||    |  
------------------------------------------------------------------------------------------------------------------gtacgtgatctctctggcattcattccggttggtattgagctg-tgtggctgctggttggcagTCTTATATGGATTCGGAGATTAGAGCGATCATGGCGCAGTACATGCCTCTGGACAGCCAGAACGAAGTCCACCGCCATCTCGAGGAGGAAGCGTAGTGAT-

upper sequence: AT2G14720.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ22768 (Selaginella moellendorffii), 3'ss of exon 11
gtaagctttttattcatccttctgctatttctgttagaagcaaaagattaatgttttatgttttggttgcctgagatgtctcttaaaacattgttttatgtaacccgatatcgtcttggaattgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGA-ACGTGCCTAAG
                                                                                                           |||||   | |   | |  |     |         |  ||| |  ||| |  |  ||        |  ||   |||||||| || ||||| ||||| || ||||||||||||||||| || |||||||||   || || |   |||||  | | || ||  | ||  |   
--------------------------------------------------------------------------------------------------------gtaatatcaattcgtgctcgcttgatccagcaaaacttaacgttctctactggaaactttt-----cctgtagTCTTACATGGATTCGGAGATTAGAGCTATCATGGCACAGTACATGCCGCTCGACAGCCAAAACGACGTGCATCACCACTTGCAAGAGGATGCTTGATTGT-

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|86061619|gb|DR357376.1|DR357376
EST:     TGGGACTTGCAGCTGCTGGTGCATACCTCGTTTACAAATATAGATTGAGG                         CAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTG
genomic: TGGGACTTGCAGCTGCTGGTGCATACCTCGTTTACAAATATAGATTGAGGgtaagctttt ... ggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatcgattacttgggaaaattgttatgaacttgctatgttcatggatttacagCAATACATGGACTCAGAGATCAGAGCCATAATGGCACAGTACATGCCACTGGACAGCCAACCTGAGGTCCCGAACCACACGAATGATGAACGTGCCTAAG
                 aaaattgttatgaa  TA-rich tract