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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttccacaacattttaaggtgttttaagacattagatccttgacctgttattatgactatgcatattgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctcagATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT

Basic information

species Arabidopsis thaliana
transcript AT4G33240.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G33240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os08g34950.1 (Oryza sativa), 3'ss of exon 4
gtaagttccacaacattttaaggtgttttaagacattagatccttgacctgttattatgactatgcatattgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctcagATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT
             |  || | | |        || ||| || |||   ||  || | | || |   | |||| ||     |   | |   ||| | |  | || |   |  ||    | | | ||||||||||||| || ||  |||  |||||||| || || ||||| |||||  | || |||||||| |||||||| |||||||||||||| || ||||| |
-------------cgcttcacgatc------aacgtta-atacttactctagtacttt-acgaaaga-attgaataataaaattgaagtcaatttca--tgtgctaactattcctaatctgt-agATATTGCTCAAAGGAGCTAATGGCGATGAGCTGAAAAAAGTGAAGCATGTTGTGCAATATGGAGTCTTTGCAGCCTATCACTTGGCTCTGGAAACATCTT

upper sequence: AT4G33240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G153722_T01 (Zea mays), 3'ss of exon 4
gtaagttccacaacattttaaggtgttttaagacattagatccttgacctgttattatgactatgcatattgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctc---------agATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT
                                   || | |||||||    ||  |  | | |          || ||   | |  |||| ||||  | ||||||  |  ||||  ||| |||         |||| ||||| || || ||  |||  ||||||||||| |||||||| |||||  | || |||||||| |||||||| || || ||||| ||||| ||||| |
----------------------------------gtttgttccttgaatgctttattaggccactttggcatcatctcatgtaaataaatgatctgcattatggtcatatatctaacttcctctgatgctgtagATCTTGCTTAAAGGTGCTAATGGTGATGAGCTAAAAAAGGTGAAGCATGTTTTGCAATATGGAGTATTTGCAGCCTACCATTTGGCACTTGAAACATCAT

upper sequence: AT4G33240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G05000.1 (Glycine max), 3'ss of exon 7
gtaagttccacaacattttaaggtgttttaagacattagatccttgacctgttattatgactatgcatattgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctcagATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT
                    |||  || |||   |  |  |  |||   ||||  | |     | |   |  | | | |  | |   | | ||  |  ||||  |  ||| | |   ||    |||| ||||| ||||| ||  |||  |||||| | |||||||||||||||||||| || |||||| | |||||||| |||||  |||| || |||||||| |
--------------------aggacttgtaaagaa--aagttgttg-tttgttgcttttctatttctcctcctctatatttttatttatttattatgtgtattttttttgctttactttga--agATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCGCTGGAGACATCTT

upper sequence: AT4G33240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G17510.1 (Glycine max), 3'ss of exon 4
gtaagttccacaacattttaaggtgttttaagacattagatccttgacctgttattatgactatgcatattgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctcagATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT
           ||  | | |||     || ||   || | | ||| ||   || |     |  | |||||| | | | |  | |          ||| || |  |  ||    |  ||||   |||| ||||| ||||| ||  |||  |||||| | |||||||||||||||||||| || |||||| | |||||||| |||||  |||| || |||||||| |
----------taatttgtaaagaaaagttgagttgtttgttgctttactatttctcc---ccctccatatttt-tatttattta----------ttatgtgtatttttttgctttactttga-agATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCACTGGAGACATCTT

upper sequence: AT4G33240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 4
gtaagttccacaacattttaaggtgttttaagacattagatccttgacctgttattatgactatgcatattgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctcagATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT
                || | | | || |   |        |||  |  || |  ||    | || | | | ||  | | |  | ||| | ||  | | | |  |||||    | | | | |||||| ||||||||||| ||  |||  |||||| | ||||| |||||||||||||| |||||||||||||| ||||| || ||||| |||||||||||||| |
--------------tcttcaggttattctggaatg------cctgcatgtgatcctacatttttg-acactttaacttttagaaagaattgatgctca-tctattgctt---ttctttgtttcagATTTTGCTCAAGGGTGCTAATGGGGATGAGTTGAAGAAAGTGAAACATGTGATCCAGTATGGAGTTTTCGCAGCTTACCACTTAGCTCTTGAGACATCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctcagATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT
                                         tctgtctttctc  CT-rich tract
                aaataatcttaagtat  TA-rich tract