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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttcttttgtttgcctgaggaatttttcttcaatatactttttgttggattggtgtgttcttgggactaatcaaaaaaattaatatacttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA

Basic information

species Arabidopsis thaliana
transcript AT1G18410.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os06g36080.1 (Oryza sativa), 3'ss of exon 11
----gtgttcttttgtttgcctgaggaatttttcttcaatatactttttgttggattggtgtgttcttgggactaatcaaaa-------aaattaatatac---ttatgtc--attgtatcttttaattcttgc-agCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA
    |  |      |          ||| |||  |    | || | ||  ||  | |  | ||| |   | |   | | |||           ||| ||||   ||||||    |||||| ||    |||| || || |||||||||    || ||  |||| || ||| ||||||||||||| || || ||||| ||||| ||||| |||||||| || |||||||||||||| ||
gtaagaataaaagcgacacttaagtgaaatttgttgtgctttagtgttgattatactaat-tgtccagagaaagtaccgaaattttgcagtgctaacatacagtttatgttcatttgtatattcattttctggctagATGAGGTATTCAAGGAAATTCAACCACTAATTAGATCAGTTCTTGATGGCTATAATGTTTGTATTTTTGCGTATGGTCAAACTGGATCAGGGAAAACATA

upper sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
gtgttcttttgtttgcctgaggaatttttcttcaatatactttttgttggattggtgtgttcttgggactaatcaaaaaaattaatatacttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA
                       |||||| | ||||  |  | | ||   ||  |  | |   || |      |||| |||||   ||||||||          |||| ||||  | |||||||||| || || || ||  |||| || ||||||||||||||||| || | |||||| ||||| ||||| |||||||| || || ||||| ||||||||
-------------------gtatatttttttacaatggaaatctggt---ataagcttatctgtgtg------caaataaattctaatacttat----------ctttcaatt--tacagCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA

upper sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G062034_T01 (Zea mays), 3'ss of exon 4
gtgttcttttgtttgcctgaggaatttttcttcaatata--ctttttgttggattggtgtgttcttgggactaatcaaaaaaattaatatacttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA
||| |  |    |||    |  ||| | ||||   | ||  || |||  | | |    ||  || |   |     |  |   ||  || |  |    |   | | | | ||  || ||  || |  ||| ||    |||||    || || ||| ||||||||||||| || |||||||| || || |||||||||||||| || |||||||| |||||  |
gtgctaatgacattgaaataaaaatatatcttttgtttaatctatttaattgctataagtactcataaaatagcactgagttatacattttttgtcatatctttctttcttgtttgttatagATATGGTTTTCAACGATATTCGGCCACTAATTAGATCAGTTCTTGATGGCTACAATGTTTGCATTTTTGCATATGGTCAAACTGGATCAGGAAAAACACA

upper sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G124883_T01 (Zea mays), 3'ss of exon 4
gtgttcttttgtttgcctgaggaatttttcttcaatatactttttgttggattggtgtgttcttgggactaatcaaaaaaattaatat-acttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA
          || |  || |        |||| | |||  || ||  |||  |  | |    ||   |  | |   |  | |  ||||  || |     || | |    |||||    ||||||||||||| || |||||  ||||||| ||  ||||||||||||| ||||  ||||| || || ||||| |||||||| || ||||| || || |||||
----------gtatatcttaa------ctcttaagtatg-ttattaatggtctaatctaaaatttaaa--agttgtatcattggatattgctcacaaagttttcttacctaatttc--cagCTGAGGTATTCTCTGATATCCAACCTCTGATCAGATCAGTTCTTGATGGGTTTAATGTGTGCATTTTTGCCTATGGTCAAACTGGATCCGGAAAGACTTA

upper sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
gtgttcttttgtttgcctgaggaatttttcttcaatatactttttgttggattggtgtgttcttgggactaatcaaaaaaat-taatatacttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA
                     | || ||  ||   | || |||       |||| |   ||  |   ||   |   |    | |||| |  |  | | ||| |    | | ||| || |||||||||| ||||| || ||| |||| || || ||||||||||| || || | ||| || ||||| ||||||||||| ||||| || || || ||||||||
---------------------gtatgttgttttcttttaatttaaaagaaattgataatttaatatcacattttgtagtgttataatctgatattctgattattctctatgatt-ttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA

upper sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
----------------------------gtgttcttttgtttgcctgaggaatttttcttcaatatactttttgttgg-attggtgtgttcttgggactaatcaaaaaaattaa----tatacttatgtc-attgtatct--tttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA
                             |     ||||  ||    |  | |||||| | |  |||||   | ||   || |        ||     || |   |    |||     |||  || |||  |||||   |  | ||| |  |||||||||||| | | | || ||| || |  |||| |||||||| ||||| ||||  ||||||||||| ||||| ||||| ||||| || ||||||||||||||
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA

upper sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA05G35130.1 (Glycine max), 3'ss of exon 11
gtgttcttttgtttgcctgaggaatt-tttcttcaatatactttttgttggattggtgtgttcttgggactaatcaaaaaaattaatatacttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA
              |  | | || |  ||| || || | | ||| |      ||    |||| |    ||     ||      |  | |||| |||  |||  ||    ||||    ||||| |||||||  || || ||  || |  ||||  |||||||||| || ||||| ||||| ||||| ||||| ||||| || || || ||||||||||||||
--------------gttttaagattaatttttttaacacagtttctcccttttttagttgttatgttaaccttctaa------tgttgtactaatgatattaaattgaataat----gcagCGGAGGTATACTCTGACATTCAATCCTTTATAAGATCAGTTCTAGATGGGTATAATGTGTGTATATTTGCTTATGGCCAAACTGGTTCAGGGAAAACTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggactaatcaaaaaaattaatatacttatgtcattgtatcttttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA
                                              ttcttgc  CT-rich tract
         aaaaaaattaatatac  TA-rich tract