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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTGATCATTTGGTTATTCAAAAACTGAATGCGGAGGGTAGGCTGGAGAAGCGAGAAACTAAAAAAGGAAGTAATTTTGACAAGgtaagggcatcttttgaatgtttgatttcctttatcaaggtttaatttctgaaagaatgacccattacttgtattctag

Basic information

species Arabidopsis thaliana
transcript AT2G13370.1
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G13370.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GRMZM2G010342_T01 (Zea mays), 5'ss of exon 19
GTTCTTGATCATTTGGTTATTCAAAAACTGAATGCGGAGGGTAGGCTGGAGAAGCGAGAAACTAAAAAAGGAAG---TAATTTTGACAAGgtaagggcatcttttgaatgtttgatttcctttatcaaggtttaatttctga-aagaatgaccc-attacttgtattctag--------------------
||||||||||| ||||||||||| || || ||||| ||||| ||||| ||||||  |||| | ||||| ||  |    |  |||||||||||| |     |||| || | | |  |||||||  |  ||| | | | | ||  | |||| |||| || | || | |  | |                    
GTTCTTGATCACTTGGTTATTCAGAAGCTAAATGCTGAGGGCAGGCTTGAGAAGAAAGAATCCAAAAAGGGTGGCTCCATATTTGACAAGgtaggtttg-ctttcgactatcttctttccttgttttaggctaactgtttggcatgaattaccctataagttttgtattgggtggtttacaagattcatta

upper sequence: AT2G13370.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA14G03780.1 (Glycine max), 5'ss of exon 21
GTTCTTGATCATTTGGTTATTCAAAAACTGAATGCGGAGGGTAGGCTGGAGAAGCGAGAAACTAAAAAAG---GAAGTAATTTTGACAAGgtaagggcatcttttgaatgtttgatttc-----------ctttatcaaggtttaatttctgaaagaatg-acccattacttgtattctag-------------------------------------------------------------------------------
||||| || || ||||| ||||||||||| ||||| |||||||| |||||||||  |||| | |||||||   ||||| |||||||||| |||||| ||| | |  ||  | | |||||           | ||| |  | ||| ||   | |  || || |   | |  || || | ||                                                                                
GTTCTGGACCACTTGGTGATTCAAAAACTAAATGCAGAGGGTAGACTGGAGAAGAAAGAAGCCAAAAAAGGAGGAAGTTATTTTGACAAAgtaaggacatttgtgaaaactgtaatttcatgtgaatattcattaccttgctttcatcatttatggactgcattgaattgttttagtttatgcagacttggtttcttttttttattttttatatttaattacacaattactgtaccaatcatttgcttctgaaatgacag

upper sequence: AT2G13370.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA02G45000.1 (Glycine max), 5'ss of exon 21
GTTCTTGATCATTTGGTTATTCAAAAACTGAATGCGGAGGGTAGGCTGGAGAAGCGAGAAACTAAAAAAGG---AAGTAATTTTGACAAGgtaagggcatcttttgaatgtttgatttccttt--atcaaggtttaatttctgaaagaatgacccattact-tgtattctag------------------
||||| || || ||||| |||||||| || ||||| ||||||||||||||||||  |||| | ||||||||   |||| |||||||||| |||||| ||| |    ||  | | ||||||| |  ||     ||   || ||   |  ||| |    |  | |  || |||                   
GTTCTGGACCACTTGGTGATTCAAAAGCTAAATGCAGAGGGTAGGCTGGAGAAGAAAGAAGCCAAAAAAGGAGGAAGTTATTTTGACAAAgtaaggacatttgggaaaactataatttcctgtgaatattcattaccttgctttcatcatgccatgcttttgtagatactaaccaccaaactactacagt

upper sequence: AT2G13370.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 5'ss of exon 21
GTTCTTGATCATTTGGTTATTCAAAAACTGAATGCGGAGGGTAGGCTGGAGAAGCGAGAAACTAAAAAAGGAAGTAATTTTGACAAGgtaagggcatcttttgaa-----------tgtttgatttcctttatcaaggtttaatttctgaaagaatgacccattacttgtattctag------------
|| |||||||||||||| ||||||||||| ||||| || ||||| |||||||||  |||| | ||||| || ||| | |||||||| ||||||  |  || | ||           | || |||| | ||    | |||||    | |  |||  |      |   |||| || ||             
GTACTTGATCATTTGGTGATTCAAAAACTAAATGCAGAAGGTAGACTGGAGAAGAAAGAATCGAAAAAGGGGAGTTACTTTGACAAAgtaaggatacattgtaaaacaattgttcttattggattacattggagatggttttggattttgaagctttgttggtg--ttgttttttaattgaagtcatca

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCTTGATCATTTGGTTATTCAAAAACTGAATGCGGAGGGTAGGCTGGAGAAGCGAGAAACTAAAAAAGGAAGTAATTTTGACAAGgtaagggcatcttttgaatgtttgatttcctttatcaaggtttaatttctgaaagaatgacccattacttgtattctag

- - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA