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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaatgaagcaatatatgtggaatggtcttcattattgcttctacatatttacaaacacaccttgtttgaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC

Basic information

species Arabidopsis thaliana
transcript AT2G30460.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os05g07670.1 (Oryza sativa), 3'ss of exon 6
gtgag-aatgaagcaatatatgtggaatggtcttcattattgcttctacatatttacaaacacaccttgtttga-atgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
|| || | |||| |||  |  |  || |    || |   ||| ||   |  |||   |      ||||||||   |||||||| ||||| || || || ||| | |||||||| ||||| ||||||||||| || || || || |||||||| |||||||||||||| || || || || |
gtaagcagtgaaacaactttcgaagacttactttgacc-ttgttttatctgattctgattttgcccttgtttcttatgcagTTTTTCATTGTATTATCGTGCTTGATATCTGTCTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACTTCTCCTGTCACTTACCAAGTCCTGGGCC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 5
gtgagaatgaagcaatatatgtggaatggtcttcattattgcttctacatatttacaaacacaccttgttt-gaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
  | || |     || || | |||     |  ||   |  | |||  ||||||   |       ||| ||| | |||||||| ||||||||| |||| ||| | |||||||||||||| ||||||||||| || || || || ||||||||||||||||| ||||| || || || || |
--gtgagtagtaaaacatctttggtgcacttatcccaacagtttcaccatattctaatttttctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G063511_T02 (Zea mays), 3'ss of exon 6
gtgagaatgaagcaatatatgtggaatggtcttcattattgcttcta-catatttacaaacacaccttgttt-gaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
  | || |     || || | |||        ||  ||  | ||| | || | |   |       ||| ||| |  ||||||| ||||| || ||||| ||||| ||||| || ||||| ||||||||||| ||||| || ||||||||||| |||||||| ||||| || || || || |
--gtgagttgcaaaacatctttggtgcacatatccctacagtttccatcacactctaagttttctcttattttgtgtgcagTTTTTCATTGTGTTGTCATGCCTGATATCGGTCTCAGTGAACTTCAGCACTTTTCTTGTGATTGGAAAGACGTCTCCTGTTACTTACCAAGTCCTGGGCC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G116053_T01 (Zea mays), 3'ss of exon 6
gtgagaatgaagcaatatatgtggaa--tggtcttcattattgct-----tctacatatttacaaacacaccttgtttgaat--gcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
|| || || |  | |    |  || |  | |  || | | | | |     || |  |  | |        | ||  |||  |  |||||| ||||||||  |||| ||||| || || || || || ||||||||||| |||||||| || || ||||| |||||||| || || || || || || |
gtaagcattagaccaggctttggggagtttgcgttaactgtcgatatcgctccatctgatcatgggtctgcatttgttgcctctgcagTTTTTCATCGTGCTGTCGTGCCTGATTTCAGTCTCGGTGAACTTCAGCACTTTTCTCGTGATCGGGAAGACGTCTCCTGTAACCTACCAAGTCCTTGGCC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G39920.1 (Glycine max), 3'ss of exon 6
gtgagaatgaagcaatat------------atgtggaatggtcttcattattgcttcta-catatttacaaacacaccttgtttgaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
|| ||| | ||  | | |            |  |   ||  |  | ||||||  ||  |     ||  |||      |||  |  | ||||| | |||||  |  | |||||||| || ||  | || || || ||||| ||||| || || ||||||||||||||||| ||||| ||||||||||| ||||
gtaagagttaaatagtcttcccaagttccaacttattattattattattattattttgaatgcgttctcaactgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G14970.2 (Glycine max), 3'ss of exon 6
gtgagaatgaagcaatatatgtggaat---ggtcttcattattgcttcta-catatttacaaacacaccttgtttgaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
|| ||| | ||  | | |              |  | ||||||  |  ||     ||  |||      |||  |  | ||||| | |||||  |  | |||||||| || ||| | || || || ||||| ||||| || || ||||||||||||||||| ||||| ||||||||||| ||||
gtaagagttaaatagtcttcccaagtcccaaattattattattattattaatgcgttctcaattgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G14980.1 (Glycine max), 3'ss of exon 6
------gtgagaatga-----agcaatatatgtggaat-ggtcttcattattgcttctacatatttacaaacacaccttgtttgaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
       | | |||||       |  ||| | |  |       | | || ||   |  |  ||||| |     |   ||  |  | | ||| |  ||||  |  | || ||| | || ||| |  | || || || || || ||||| || |||||||||||||||||  |||| ||||||||||| ||||
gtgagatttaaaatgatttgcgtccttatttttaaacccaaattcctttgttttgttaatttattttcggctgctattttctacactacagATGGTCATTATTCTTTCATGCATGATCTCTATCGCGGTGAATTTTAGTACATTTCTTGTAATTGGAAAGACATCTCCAATCACCTATCAGGTTCTTGGAC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv06s0004g07960.t01 (Vitis vinifera), 3'ss of exon 7
---------------gtgagaatgaagcaatatatgtggaatggtcttcattattgcttctaca-------tatttacaaacacaccttgt-------------ttgaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
                ||| ||   |  ||| | |   |  |||| ||  || ||  |||   |       || ||  |||  || ||  |             |    ||||| ||||||| ||  | || ||||| ||||||||||| ||||||||||| || ||||| || ||||| |||||||||||||| || || ||||| || ||||
gtgaggattgaaattttgataaaacattaatttcttctgtttggtttttttttttctttcctaaatttctctacttcaaaattcaactcctaaatctaatcacctcatttgcagGTCTTCATTGTTCTATCTTGCCTGATATCTGTTTCTGTAAACTTCAGTACATTTCTAGTTATTGGGAAGACATCTCCTGTAACATACCAGGTCCTGGGAC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S311_78V6.1 (Physcomitrella patens), 3'ss of exon 5
---------------gtgagaa----tgaagcaatatatgtggaatggtctt--cattattgcttctacatatttacaaacacaccttgtttgaatgc-agTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
               |||| |     ||      | |   |   |||  |||   ||  |||  |||   | ||  ||      | ||  |||  ||| |||||||||||||  | || || ||||||||||| ||||| ||||||||||||||||| || ||||| ||||||||  | || |||||||| || || ||||
taagagtaacggatcgtgacaccatttgggtttttctgcttttgatgagcttattatccttgtctct-tgtcttctcattgtggcttttgttgggtgccagTTCTTCATCGTGCTTTCGTGTCTCATATCTGTATCAGTTAACTTCAGCACGTTTCTAGTTATTGGGAAGACATCAGCGGTGACTTATCAAGTGCTTGGAC

upper sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S123_22V6.2 (Physcomitrella patens), 3'ss of exon 5
---------gtgagaatga--agcaatatatgtggaatggtcttcattattg--cttctacata--tttacaaacacacc-----ttgtttgaatgc-agTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
         || |   |||  |      |||||    | |   |||||  |   |||| |      |||||   | ||||     ||||| | |||| |||||||| ||||  | || || || |||||||| ||||| ||||||||||||||| | || ||||||||||||||| | || |||||||| || || || |
atcatctgggtaatgttgactaatctcctatgtcagttcgggatcattgataaacttccatgcgcttttacgtgctcaccgtggcttgttgggatgccagTTCTTCGTCGTGCTTTCATGTCTGATATCTGTATCAGTCAACTTCAGCACGTTTTTAGTTATTGGAAAGACATCTGCGGTGACTTATCAAGTGCTTGGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggtcttcattattgcttctacatatttacaaacacaccttgtttgaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC
                                       ccttgttt  CT-rich tract
                     tacatatttacaaa  TA-rich tract