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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcgttttcgtcccattcatttgttatgttcataagcttcatttttactcattgttgagccgctttttctaaagCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG

Basic information

species Arabidopsis thaliana
transcript AT4G05520.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 12
-------------------------------------------------------------------------------------------------------------gtaagtttcgttttcgtcccattca--tttgttatgttcat--aagcttcatttttactcattgttgagccgctttttctaaagCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
                                                                                                              ||  ||||   |     | |   |   | | |||||| ||  ||     ||    |||     |    |   ||| ||   |||| |||||||| ||||||||| || | ||||||||||| ||||| |||||||||||||| ||| | ||||| || || ||
gtgagtgttattgctatccctttatagtgtgataacatattccattttcatcctctttatgcataggaaaaaaaatcatggagtgtgataagaaacattgatttgttttttacatttcaagtggagacaaaaaagagtagctatgttgattgaaagcaaataacgactttgcttctgacaaatttatcctcagCTCATGAGAGTCTATGGAGCACTGCTATGGTCGCTTGGGAAAGTTCTGAACACACCAGAAGTCATGCGTGTGTACATAGG

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G065012_T02 (Zea mays), 3'ss of exon 12
--gtaagtttcgttt--tcgtcccattcatttgttatgttcataagct--------tcatttttactcattgttgagccg--------ctttttctaaagCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
  |  |  |    |     || |  || |||     |  | ||||||         || || | ||  | |  | |              |||| |  |||| ||||||||||| |||||| || |||||||||| || |||||||||||||||||||| ||| | |||||||| || ||
ttgatacctcaactcaactgtacagtttattaacccttctaataagcagctgccagtctttctgacgtaatagtaaagaaaaaaatgttctttttttcagCTGATGAGAGTGTACGGAGCACTGCTGTGGTCGCTCGGGAAAGTCCTGAACACACCAGAAGTCATGCGTGTCTACATAGG

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA15G11970.1 (Glycine max), 3'ss of exon 11
----gtaagtttcgttttcgtcccattcatttgttatgttcataagcttcatttttactcattgttgagccgcttttt----ctaaagCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
    |  |   ||    | |      |  ||| | || || || | ||   ||||||   | |     |||   || |     |  |||| |||||||| |||||||||||||||||||| || |||||||| || || || || || ||   |||||| || || ||
gtaagacaacatcaacataggttacctggtttatcatatttattatctaactttttatctacttacatgcctaattataatattgtagCTTATGAGAGTTTATGGAGCATTGATGTGGTCACTGGGTAAAGTTCTAAATACTCCTGAAGTTACACGTGTATACATAGG

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA17G01310.1 (Glycine max), 3'ss of exon 12
----------gtaagtttcgt--tttcgtcccattcatttgttatgttcataagcttcatttttactcattgttgagccgcttttt----ctaaagCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
           |      | |  |||   | |||  |     ||  ||  | |  | |  ||| ||||| |  |  |||   ||||     |  |||| |||||||| ||||||||||||||||||||  | || ||||| ||||| || ||||| || || ||||| ||||||||
gtaatgcagcatcgacaacataatttaacctcatcta---aataaatttgttatttactctttgactcacttctatgcctgattttaatattgtagCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAATACTCCAGAAGTTGTGCGTGTATATATTGG

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA09G01160.1 (Glycine max), 3'ss of exon 10
----gtaagtttcgttttcgtcccattcatttgttatgttcataagcttcatttttactcat-tgttgagccgctttttctaaagCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
    |  | | ||    | |      |  ||||| || || || | |||  ||  |||| |  ||   |   |   | | |  |||| |||||||| |||||||||||||||||||| || |||||||| || || || || || ||   |||||| ||||||||
gtaagagaatatcaacataggttacctggtttgtcatatttattatcttttttgctacttacatgcctaattgtgatat-tgtagCTTATGAGAGTTTATGGAGCATTGATGTGGTCACTGGGTAAAGTTCTAAATACTCCCGAAGTTACACGTGTATATATTGG

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA07G39450.1 (Glycine max), 3'ss of exon 12
gtaagtttcgttttcgtcccattcatttgttatgttc---ataagcttcatttttactcattg--------ttgagccgctttttctaa----agCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
||||  | |  | ||| |   || ||||    || ||   ||||  ||  | |||||||||||         |  ||| | ||||  ||    |||| |||||||| ||||||||||||||||||||  | || ||||| ||||| || ||||| || || ||||| ||||||||
gtaa--tgcagtatcggcaacttaatttaacctgatctaaataaatttgttatttactcattgacttacttctatgcctcattttaaaattgtagCTCATGAGAGTTTATGGAGCATTGATGTGGTCTTTGGGGAAAGTTCTGAATACTCCAGAAGTTGTGCGTGTATATATTGG

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 13
------------------------gtaagtttcgttt-tcgtcccattcatttgttatgttcataag----cttcatttttactcattgttgagccgcttttt-ctaaagCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
                         ||  |||| ||  || ||  ||| |  | || |      ||     | |||||| |   | |  |||   |   || | ||| |||||||||| || ||||| |||||||||||||| ||||| |||||  |||| || || ||||| || || || ||||||||
gtaggatttacaactgttatcctcttatttttcattcctcttcatatttaccttttctcccagcaattgatcctcatttcttgacttgattgcatcttgttatactatagCTAATGAGGGTCTATGGTGCATTGATGTGGTCACTTGGGAAAGTTTTGAATACTCCCGAGGTTGTGCGAGTTTATATTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttatgttcataagcttcatttttactcattgttgagccgctttttctaaagCTAATGAGAGTGTATGGAGCATTGATGTGGTCGCTTGGTAAAGTCCTGAACACACCAGAGGTCGTACGTGTCTATATTGG
                                        ccgctttttct  CT-rich tract
                  ttcattttta  TA-rich tract