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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgtctatgctccagtagttatgaatttctagaccagcagaacaatgtttagcagatgccattttatatcattaactatatacacttggaatatcatacaagagtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG

Basic information

species Arabidopsis thaliana
transcript AT1G04140.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G04140.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os02g18820.2 (Oryza sativa), 3'ss of exon 13
gtaacgtctatgctccagtagttatgaatttctagaccagcagaacaatgtttagcagatgccattt-tatatcattaactatatacacttggaatatcatacaagagtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
                                                |  ||    | | |  ||| | |  || | || |  |    |   | |     |  |    |||  ||   || ||||  ||| ||  | | || | || ||||| || || ||||| ||||| ||||| ||||| ||  | || |||||||| || ||||| |||||||||||||| ||||| || |||||||
----------------------------------------tcatgtgttaattgcttgctccggtttctgtgccacttacaagctcagttcttacttatgaatgaagccttaatct-cattattcctattc-atcacgttagGTCTATAGAGTATCGGACATGGAGCTGGTAAGAGTTCTTCCTAGTGCTGAAGATGAAGTAAACGTTGCATGCTTTCATCCTTCCCCTGGAGGTGGTCTTG

upper sequence: AT1G04140.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G007229_T01 (Zea mays), 3'ss of exon 12
gtaacgtctatgctccagtagttatgaatttctagaccagcagaacaatgtttagcagatgccattttatatcattaac--tatatacacttggaatatcatacaagagtttagactgtgtttttccctttctatt-ccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
                                        || || |||  |||     |  | |  |  |  | |||   |    | |||| |  ||  ||  |||   | | | | |  |||||    | |||| | || || | || ||||||||||||||||| || |||||||| ||||| ||| | || ||||||||||||||||| |||||||||||||| || || || || ||||
---------------------------------------tcaaaataat--ttacttattatcctcctcaactactaatattgctcatactttgtgtacaatgtaag---tcaaattatcattttcttcatttattacttttagGTATATAGAGTTTCAGATATGGAGCTTGTGAGAGTGCTTCCTAGCGCTGAAGATGAAGTTAATGTTGCATGCTTTCATCCTTCACCAGGAGGTGGCCTTG

upper sequence: AT1G04140.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G353548_T01 (Zea mays), 3'ss of exon 12
gtaacgtctatgctccagtagttatgaatttctagaccagcagaacaatgtttagcagatgccattttatatcattaactatat-----acacttggaatatcatacaag--agtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
                                              |||| || ||  ||   ||  |  |  | ||   ||||     | |||| |  ||  ||  |||  |   ||       |||||     | |||| ||| || | || ||||||||||||||||| || |||||||| ||||| ||  | || |||||||| |||||||| |||||||||||||  || || || || ||||
----------------------------------------------aatgatttgcttat--tatcctccacaactactcatattgctcatactttgtgtacaatgtaagccaaactatcaatctttttttttaatttattactttagGTATATAGAGTTTCAGATATGGAGCTTGTGAGAGTGCTTCCTAGTGCCGAAGATGAAGTCAATGTTGCATGCTTTCATCCTTTACCAGGAGGTGGCCTTG

upper sequence: AT1G04140.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 11
gtaacgtctatgctccagtagttatgaatttctagaccagcagaacaatgtt-tagcagatgccattttatatcattaactatatacacttggaatatcatacaagagtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
                                    || ||| || | |||| |     ||  ||| | ||  | ||   | | ||    |      |       || ||||   ||| |||     |   |  || || || | |||||||| |||||||||||||| || || || ||||| ||  |||| ||||| || ||||| || ||||||||||||| | | || ||||| || |
-----------------------------------gccggcacaa-attgttgtcattcatatcatct-atgccctt---tttgtagttctaatggttttagtctgaatttaa--tgtctttgaatttgctttgtcttttagGTATACAGAGTGTCAGATATGGAACTTGTTAGGGTGCTTCCTAGTGCAGAAGATGAGGTCAATGTGGCATGCTTTCATCCTTTTGCCGGAGGAGGACTAG

upper sequence: AT1G04140.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 11
gtaacgtct--atgctccagtagttatgaatttctagaccagcag-aacaatgtttagcagatgccatt-ttatatcattaactatatacacttggaatatcatacaagagtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
|||||   |  |   |  | |||   |        |     | |   |  || |  |   || |   |  | |  |  || | ||| |   |      ||   | |     |||    | |      | |||| | | |  |||| ||||| |||| |||||||||||||| || ||||| ||||| ||  | || ||||| || ||||| ||||||||||||||||  ||||| ||||||||||
gtaacacttcaaaattttaatagcattaggcagtaaatatggtactgaagatctccaattgaagtgctggtcaagtactttattatctgttcaaatcttactgttctgatctttcaggtctcacaggctctttttgt-cactcagGTTTACCGAGTCTCAGATATGGAACTTGTTAGAGTGCTTCCCAGTGCTGAAGATGAGGTCAATGTAGCTTGCTTTCATCCTTTACCTGGAGGAGGTCTTG

upper sequence: AT1G04140.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S58_234V6.1 (Physcomitrella patens), 3'ss of exon 12
-------------------gtaacgtctatgct--ccagtagttatgaatttctagaccagcagaacaatgttt-----------agcagatgcca-ttttatatcattaactatatacacttggaatatcatacaagagtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
                   || |||    |||    |  ||  | ||      | |  |          | ||            ||   ||| || || || ||   ||  |   |    |      ||| | |  || |    || |  ||| ||  ||||| |||  |||| | |||||||||||||||||||| || |||||||||||||| ||  | ||||||||||| ||||| || || ||||||||      ||| || |||||||
gtttgaatatcttctctcagtcacgctcttgcaagtcgctatctgtgtccccttggttccttgacgtgtttttcctgagtcccacagtgaatggcaattctacattcctacttgcgt-tgataactcaatcttcctggactaagcacaggttttctctttttctgttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAGGATGAAGTGAATGTGGCGTGTTTTCATCCCCAAGTTGGTGGCGGTCTTG

upper sequence: AT1G04140.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ26270 (Selaginella moellendorffii), 3'ss of exon 12
gtaacgtctatgctccagtagttatgaatttctagaccagcagaacaatgtttagcagatgccattttatatcattaactatatacacttggaatatcatacaagagtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
                                                                                 | | | ||     | |  |      |  |  | ||   |||||| ||| |      ||||||||| ||| | |||||| || |||| ||| |||| || |||||  | || |||||||||||||| || ||||||||||||     ||| ||||| ||||
--------------------------------------------------------------------------------gtttgcgctctctgtttttt-----ggactccattgaaattttccttttgt---ttctcagATTTATAGAATATCAGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTG

upper sequence: AT1G04140.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ14567 (Selaginella moellendorffii), 3'ss of exon 11
gtaacgtctatgctccagtagttatgaatttctagaccagcagaacaatgtttagcagatgccattttatatcattaactatatacacttggaatatcatacaagagtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
                                                                                 | | | ||    || |  |      |  |  | ||   |||||| ||| |      ||||||||| ||| | |||||| || |||| ||| |||| || |||||  | || |||||||||||||| || ||||||||||||     ||| ||||| ||||
--------------------------------------------------------------------------------gtttgcgctctctatttttt-----ggactccattgaaattttccttttgt---ttctcagATTTATAGAATATCAGATTTGAAACTAGTGCGAGTTCTCCCAAGTGCTGAAGATGAAGTTAATGTAGCGTGCTTTCATCCTCGAGTTGGCGGAGGGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttggaatatcatacaagagtttagactgtgtttttccctttctattccttcagATTTACAGAGTTTCAGATATGGAACTGGTGAGAGTACTTCCAAGCTCAGAGGATGAAGTTAATGTTGCTTGCTTTCATCCTTCTCCTGGGGGAGGTCTTG
                           ctgtgtttttcccttt  CT-rich tract
      aatatcata  TA-rich tract