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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttattcctctagttttgtttttgttaattggatatagttattctgctttttcctcaatggttgtttttgtattttccgtaacagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG

Basic information

species Arabidopsis thaliana
transcript AT1G52150.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: AC187157.4_FGT005 (Zea mays), 3'ss of exon 4
-----------------------------------------------------------gtattttattcctctagttttgtttttgttaattggatatagttattctgctttttcctcaatggttgtttttgtattttccgtaacagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG
                                                            |||| |||||||      | |      |||| || |       ||  | |||        |   |   ||   |     || |  ||||||||||||||||| ||||||||||| || || || ||||| ||| | ||||| || || || || || ||||| |||||  | |||||| | |  
gttggtcacggcctctgaatcactactactatttcgcttgcttgtttgcctctgaatcactattatattccttc---ctcgcgcggcttaactgaactgctccatcgttcttgcctacgtactctccattccatgggcacccttgcagCCTGGTCCGGATTCTATTGGAATCATTGCCATCTCGCATGGCTGCCCCGGTGTCGCCGCGCGAGCTTGCGGCCTCGTGGGCATGGAGCCTGCGAAA

upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 4
--------------gtattttattcctctagttttgtttttgttaat-tggatatagttattctgctttttcctcaatggttgtttttgtattttccgtaacagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG
                 ||| | |    ||||    |   ||||  | |  | ||   ||   |    |||| ||| |  || || ||| || | |    |||||||||||||||||||||||||||| | ||||||||||||||||||||||||||||||||  | |||||||| |||||||| || || || || |||
gcaatgatttccattcttttgaataaattagtggcatacatgtttctataaacatttataaaatcaagtttcttcactaattcttgttgaatgtgc----acagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCACTGGTGTGGCAGCTAGAGCCTGTGGTCTAGTGGGACTAGAACCCACTAGG

upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G21610.1 (Glycine max), 3'ss of exon 5
--------------gtattttattcctctagttttgtttttgttaat-tggatatagttattctgctttttcctcaatggttgtttttgtattttccgtaacagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG
                 ||  | |    ||||    |   ||||  | |  | ||   ||   |      || ||| |  || || ||| || | |     ||||||||||||||||||||||||||| | ||||||||||||||||||||||||||||||||  | |||||||| |||||||| || || || || |||
tcaatgatttccatcctttcgaataaattagtggcatacatgtttctataaacatttataaaatcacgcgtcttcactaattcttgttgaatgtgct----cagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCACTGGTGTGGCAGCTAGAGCCTGTGGTCTAGTGGGACTAGAACCCACTAGG

upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 4
gtattttattcctctagttttgtttttgttaattggatata-gttattctgctttttcctcaatggttgttttt---gtattttccgta--------acagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG
 |   | ||| |  |  |||||  |   ||| | | ||| | |||  | |  |  ||  | ||    ||||| |    || ||  |||         |||||||||||||||||||||||||||| | ||||||||||||||||||| ||||||||||||| | || ||||| |||||||| || || || || |||
-tcgatgatttccattcttttgaataaattagtggcatacatgtttctataatcatttataaaatcatgtttcttaactaattctcgttgaatgtgcacagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCAATGGTGTGGCAGCAAGAGCTTGTGGTCTAGTGGGACTAGAACCCACTAGG

upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G01950.1 (Glycine max), 3'ss of exon 4
---------gtattttattcctcta-----gttttgtttttgttaat-tggatatagttattctgctttttcctcaatggttgtttttgtattttccgtaacagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG
           ||||   |  |  |     |  |  |   ||||  | |  ||||   ||   |  | |||| ||| |  || || ||| || |      |||||||||||||||||||||||||||| | |||||||||||  |||||||||| || |||||| | || |||||  ||||||| || || || || |||
ggagagataacatttgcctattaaaaaaaagggtcatacatgtttctataaatatttataaaatcgtgtttcttcactaattcttgttgaatgtgt----acagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCACAGTTGCACTGGAGTAGCAGCAAGAGCTTGTGGTTTAGTGGGACTAGAACCCACTAGG

upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 4
-------gtattttattcctctagttttgtttttgttaattggatatagttattctgctt-----tttcctcaatggttgtttttgtattttccgtaacagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG
       |  | ||  |     | ||||| |   |  | ||   | |   |    || ||     | |  ||  | |     |||||||     ||  ||||||||||||||||||||||||||| | ||||||||||||||||||||||| ||||||||||| ||||| ||||| |||||||| ||||||||||||
atctaaggggtattcctttataacttttgctgccgaaatttctctctccatgacttggttgatagtattttcctttgaaaactttgtatgacgtgtg-cagCCTGGTCCGGATTCCATTGGAATCGTTGCTATTTCTCATGGTTGCACTGGAGTGGCAGCACGAGCCTGCGGCCTGGTGGGTCTAGAGCCTACAAGG

upper sequence: AT1G52150.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S15_11V6.1 (Physcomitrella patens), 3'ss of exon 5
gtatttta----ttcctctagttttgtttttgttaattggatatag-ttattctgctttttcctcaatg--gttgtttttgtattttccgta----acagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTA-CAAGG---
 || ||||     |      ||  || | ||| |  ||  ||  |  |||   || ||  |    ||||   ||| |  |   |     ||      ||||||||||||||| ||||||| ||||| ||||| || |||||||||   ||  | ||||| || || || ||||| | ||  || ||   || ||| |   
ttaatttaggagctaacaaggtaatgatattgattctttaattcaaattaaagtggttgattgcaaatgccattgctgatacgtcactagtgcaatgcagCCTGGTCCGGATGCCATTGGCATCATTGCTATATCCCATGGTTGCGTGGGCATAGCAGCTCGAGCGTGCGGCCTTGCGGCGCTCGATTTTAGCAAAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatatagttattctgctttttcctcaatggttgtttttgtattttccgtaacagCCTGGTCCGGATTCCATTGGAATCATCGCTATTTCTCATGGTTGCACTGGTGTGGCAGCACGCGCCTGTGGCCTAGTGGGTCTTGAGCCTACAAGG
                                  tttttgtattttcc  CT-rich tract
                               ttgtttttgtatttt  TA-rich tract