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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacatcactatttgtggatcattatattatgaagcaattccttatgagatattcaatttgggtaacttgtatgtttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G65930.3
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os04g57140.1 (Oryza sativa), 5'ss of exon 10
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtt---taaacatcactatttgtggatcatt-atattatgaagcaattccttatgagatattcaatttgggtaacttgtatgtttgtag
|||  | || |||||||||||||| ||||| || || ||||| || || |||||||||||||||||||||||||| || |||||||| || || || ||||||   |  | ||| |||   |   || ||| ||| ||||       |     ||| |||  ||  |  | ||  | |           
ACTGAGAGATATCATGCAATTTGGGAGCAGCAATACCGCTGTTTTCTTTAAAATGAGAGTCGCTGGTGTTCTTCATATCTTTCAGTTTGAAACTAAGCAGgttagttttaaatctctaccaggaaataattcatactatgtgtaggct----gtgaaataaccatct--gatatttag-----------

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G070273_T01 (Zea mays), 5'ss of exon 10
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacatcactatttgtgg-atcattatattatgaagcaattccttatgagatattca-----atttgggtaacttgtatgtttgtag
|||| | ||||||||||||||||| ||||| || ||||||||||| || |||||| | || |||||||||||||| || ||||| || || ||||| ||||| |     | |   || | || |  | | ||| ||  |||   ||||  |     || ||      || |  ||||   |   ||| |||
ACTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTCTTCTTTAAAATGCGGGTTGCTGGTGTTCTTCATATCTTTCAATTTGAAACAAAGCAGgtat---tctaaagcttcgaggcaatagtttataatacagccgatcctgttatatcatccatagctgttagaataacg-atgactttttag

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 10
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacatcactatttgtggatcattatattatgaagcaattcct--tatgagatattcaatttgggtaacttgtatgtttgtag-
| || | ||||||||||||||||| ||||| || |||||||| || || |||||| |||| |||||||| ||||| || ||||| || || ||||| ||||| |    |  | | |    | |  | |  || ||| | |   ||||  |||   || |  || |     ||     |||||| |   
ATTAAGAGACATCATGCAATTTGGTAGCAGCAATACTGCTGTTTTCTTTAAAATGCGAGTTGCTGGTGTCCTTCATATCTTTCAATTTGAAACAAAGCAGgtattctaa--agtttcgaggcaatagttcataatgcatctgatcctgttatatcatctataactgatagaataaccatgttttttag

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA01G35950.1 (Glycine max), 5'ss of exon 12
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacatcactat-----ttgtggatcattatattatgaagcaattccttatgagatattca-atttgggtaactt----gtatgtttgtag--------------------------
  |  | ||||| ||||||||||| ||||| || ||||| || ||||| |||||| |||| || ||||||||||||||||||||||| || ||||| ||||| | | |||    |      || |     |  |  || | ||      ||||  ||  |||||| || |   | ||||    ||   ||| ||                           
GTTGAGGGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAATGCGAGTTGCAGGTGTTCTTCACATATTTCAGTTTGAAACAAAGCAGgtattagcatgctcagggacattctactctaccaatttcttaatttcggcctttggacttattcatatcttcattactttggagttattttatattattagtattttatcattctttgaag

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA09G32740.1 (Glycine max), 5'ss of exon 12
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacatcactatttgtggatcattatattatgaagcaattccttatgagatattcaattt---gggtaacttgtatgtttgtag---
  |  | ||||| ||||||||||| |||||||| ||||| ||||| || |||||| |||| || |||||||| |||||||| ||||| || || || ||||| |||  | |  | ||  ||     | | |  |        ||| ||  ||  ||||     |    | ||  || | | ||||| |   
GTTGAGAGACATAATGCAATTTGGAAGCAGTAATACTGCAGTCTTCTTTAAAATGCGAGTTGCAGGTGTTCTCCACATATTCCAGTTTGAAACCAAGCAGgtataa-tacctttgttgatga--tgtcacacaaacccttgtttctttg-gaattattttgcctcactgatattttatctatttgttgtag

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA16G21340.1 (Glycine max), 5'ss of exon 15
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacatcactatttgtggatcattatattatgaagcaattccttatgagatattcaatttgggtaacttgtatgtttgtag
  |  | ||||| ||||||||||| ||||| || ||||| |||||||| |||||| |||| || |||||||| |||||||| ||||| || || || ||||| |||  | |  | ||  ||   ||  |  ||     | ||||  || ||  | | |    ||   |  ||||     ||||||
GTTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTCTTTTTTAAAATGCGAGTTGCAGGTGTTCTCCACATATTCCAGTTTGAAACCAAGCAGgtataa-tacctttgttgatgttgcacaaactttctttggaattattt-tgtcacactggtattttatctcttgg----ttgtag

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA11G09480.1 (Glycine max), 5'ss of exon 12
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacat--------------cactatttgtggatcattatatta---tgaagcaattccttatgagatattcaatttgggtaacttgtatgtttgtag--------------------
| |  | ||||| ||||||||||| ||||| || ||||| || ||||| |||||| | || || ||||||||||||||||| ||||| || ||||| ||||| |   |||               ||| ||  | | || | || |     |   |   |  || ||    |  | | ||||      || ||| ||  | |                    
ATTGAGAGACATAATGCAATTTGGAAGCAGCAATACTGCAGTATTTTTTAAAATGCGGGTTGCAGGTGTTCTTCACATATTCCAGTTTGAAACAAAGCAGgtattggcatgttcagggacactgtactcttcctagttcttaatttcgacctttggacttgactcatatcttcattactttgaagttattttattttattggtattttatcattctttgaag

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 5'ss of exon 11
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtt--taaacatcactatttgtggatcattatat----tatgaagcaattccttatgagatattcaatttgggtaa--cttgtatgtttgtag-----------------------------------------
|||| | || || ||||||||||| ||||| || |||||||| ||||| || |||||||| || ||||| || |||||||| ||||| || || |||||||||  ||| | |     ||| |  ||   |||||     ||      | |  |  |    | ||   |||  |||   ||||| ||  | |                                           
ACTAAGAGATATAATGCAATTTGGTAGCAGCAATACTGCTGTATTTTTTAAGATGAGAGTTGCAGGTGTCCTCCACATATTCCAGTTTGAAACTAAACAGgttcttaatcttttgagtttctatatgtatatatataacatttttagagttttagtctcttttttcttttatgtattccttgtttgcctatcaaaaaattattatttgatagagttctattccattttatgcag

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: PP1S83_25V6.1 (Physcomitrella patens), 5'ss of exon 12
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgt-ttaaacatcactatttgtgg----------atcattatattatgaagc-aattcc--ttatgagatattcaatttgggtaacttgtatgtttgtag---
  | || || |||||||| |||||||| |||||||||||||| ||||| |||||| |||||||||| || || || || ||||||||||| ||||| ||||| |  |   | | | | | |||               |    | || |   ||||    |||||||  |   | ||   ||||    |   |||| |    
GTTGCGAGATATCATGCAGTTTGGCAGTAGTAACACTGCTGTATTTTTTAAAATGCGAGTCGCTGGAGTCCTACATATTTTTCAGTTCGAAACAAAGCAGgtatctattcttaatgtctatggtcatactcaagcttctgcggtgtggatttaattttagttatgagtcaacaatttaatgtaaa--atccctttgaaacag

upper sequence: AT5G65930.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: PP1S364_50V6.1 (Physcomitrella patens), 5'ss of exon 13
ACTACGTGACATCATGCAATTTGGCAGCAGTAACACTGCTGTCTTTTTCAAAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacatcactatttgtggatcattatattatgaa-gcaattccttatgagatattcaatttgggtaacttgtatgt-ttgtag----
||| || ||||| ||||||||||| ||||| ||||| || ||||||||||||||| | || || ||||| || || || |||||||| ||||| || ||||||     ||     |   | |||| ||   || |    |||| ||| |||   || ||  |  |   |   | || ||| ||||      
ACTGCGCGACATTATGCAATTTGGTAGCAGCAACACAGCCGTCTTTTTCAAAATGCGTGTAGCGGGTGTACTGCATATTTTTCAGTTTGAGACTAAGCAGgtt-----attttcgtacctagatc-ttgctttgtacttgcaaatccctatattattttggagatttatttttggtttgtcttgtgagcag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|125061157|gb|EL129796.1|EL129796
EST:     AAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAG                         GGAGAAGAAATTTGT
genomic: AAATGAGAGTCGCTGGTGTTCTTCACATATTTCAGTTCGAGACAAAACAGgtttaaacat ... atgtttgtagGGAGAAGAAATTTGT