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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaatcgatatatgaccaagcttgtctcggtttagtgaggttgattgaagtatatgtg...

Basic information

species Arabidopsis thaliana
transcript AT1G57870.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os03g62500.1 (Oryza sativa), 5'ss of exon 10
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagt-atcaattatcacctaatagggttctcttaatcgatatatgacca-agcttgtctcggtttagtgaggttgattgaagtatatgtg
||||||||||| ||||||||||| |||||||| ||||||||||| |||||||| || || ||||| ||||| || ||  ||||||| ||||||||||||| | ||   |  |   |||   | |   ||||  | | ||  | | | || ||       |        | | |  | | |   |||    |   ||| 
GTTTTGGGTACTCCAACAAGGGAAGAGATCAAGTGCATGAATCCGAACTACACGGAGTTCAAATTCCCTCAAATTAAGGCTCATCCATGGCACAAGgtattctgcccatccttgacaaaactaatgcaatatcgatgtccgatttggtacatacttttgggacagggagatcttttaacgcaaattactatgc-tgt-

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G138676_T01 (Zea mays), 5'ss of exon 10
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaatt-atcacctaatagggttctctta-atcgatatatgaccaagcttgtctcg-gtttagtgaggttgattgaagtatatgtg--
||||||||||| ||||||||||| |||||||| |||||||| |||||||| || || || || || || || || ||| ||||||| ||||||||||||      || || ||  |||  || |  ||     ||    | | |  ||| | |  |     ||  || |  |  |    || ||  |||  |  |      
GTTTTGGGTACTCCAACAAGGGAAGAGATCAAGTGCATGAACCCAAACTATACGGAGTTCAAGTTCCCACAAATTAAAGCTCATCCGTGGCACAAGgta----attaata-tacaaatagataatttagctctgtatcatcacagtgatgtctagctggaattaactggcatacaaaatggatgcgtgatatgcacaaacg

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 9
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaatcgatata-tgaccaagcttgtctcggtttagtgaggttgattgaagtatatgtg-
|||||||| || ||||| ||||||||||| || |||||||| ||||| || || |||||||| ||||| ||||||||||||||||| |||||||||||  |  |    |  |    | |  ||     ||   | || | |||   | || | |   ||   || | |||| | |  |  |     || |   ||   
GTTTTGGGAACTCCAACCAGGGAGGAGATAAAGTGCATGAACCCAAATTATACTGAATTTAAGTTTCCACAGATAAAACCTCATCCATGGCACAAGgttcattgtctcttatgcttacttacattctgtaacttactgtgaatgtttgtagtaattcagg--gtttaggttaaatttgcatatgctaattcattgcct

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA12G28730.1 (Glycine max), 5'ss of exon 10
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaatcgatata-tgaccaagcttgtctcggtttagtgaggttgattgaagtatatgtg-
|||||||| || ||||| ||||||||||| || |||||||| ||||| || || |||||||| ||||| ||||||||||||||||| |||||||||||  |       |  |    | |  ||  |  ||   | || | |||   | || | |   ||    | | |||| | |  | ||     || |   ||   
GTTTTGGGAACTCCAACCAGGGAGGAGATAAAGTGCATGAACCCAAATTATACTGAATTTAAGTTTCCACAGATAAAACCTCATCCGTGGCACAAGgttcattctcttttctgcttacttacattttgtaacttactgtgaatgtttgtagtaattcagg--atttaggttaaatttgcttatgctaattcattgcct

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 5'ss of exon 9
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaatcgatatatgaccaagct-tgtctcggtttagtgaggttgattgaagtatatgtg--
|| ||||| ||||| || ||||||||||| ||||| ||||||||||||||||| ||||||||||| || || ||||| |||||||| ||||||||||||| |  ||     | ||  ||   |||  ||| | |    |  |||  |  |||     ||| | | ||    |       |   |     |  |      
GTCTTGGGAACACCTACCAGGGAGGAGATAAAATGTATGAATCCAAACTACACCGAATTTAAATTCCCACAAATAAAGCCTCATCCATGGCACAAGgtatgct-ctttccctttcctttgaaacc--ataagttcaaatgtatctgtcaatgtttgtgctctctttctccctctccctctccctctccctccacccacc

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 5'ss of exon 8
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaatcgatatatgaccaagcttgtctcggtttagtgaggttgattga-agtatatgtg---
|| ||||| ||||| ||| | |||||||| || ||||||||||| |||||||| || || || |||||||| || ||  ||||||||||||||||||||    ||| ||        |  |   ||  || ||| || |  |  ||| ||     |   |||  | |     || |  |  ||| | | ||   |||   
GTGTTGGGGACACCCACACGCGAGGAGATAAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCTCAAATTAAGGCTCATCCTTGGCACAAGgtacg--gctggtctgtgtgttagtggtctggtatggtgctttgga--gatgtactgtaacagttgattggaaagcgttacctgtattcataataacggtgatt

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: PP1S52_55V6.1 (Physcomitrella patens), 5'ss of exon 9
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagta-gtatcaattatcacctaatagggttctcttaatcgat---atatgaccaagct-tgtc-tcggt-ttagtgaggttgattgaagtatatgtg-------------------------------------------------------------------------------------
|| || || ||||| ||| | |||||||| || ||||||||||| |||||||| || || || |||||||| || ||  |||| || |||||||||||||   | | ||| || |   ||| |   |  ||| | ||| |||    ||   ||| ||   | |  |||| ||| | || ||||  |||| |   ||   |  |                                                                                     
GTGTTAGGGACACCTACACGTGAGGAGATAAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCTCAAATTAAGGCTCACCCGTGGCACAAGgtatg--gtttgtatgtttgggttagctatttttagtggtctattatataatttgataggaattatccgtgtcctcgatattggtgattttgaatttggttggttggacgctgctactcgttgtgattgggagaatggagcgtgttgcattgaccttagcaacgtgcgaattgattggttctgtggtggcag

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: PP1S306_62V6.1 (Physcomitrella patens), 5'ss of exon 8
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagt---agtatca-attatcacctaatagggttc--tcttaat-cgata-----tatgaccaagcttgtctcggtttagtgaggttgattgaagtatatgtg---------------------------------------------------------------------
|||||||| ||||| ||  | ||||||||||| ||||||||||| ||||||||||| || || ||||| || || ||  | || || |||||||| ||||     | ||   | |   |   | ||| |      | | |  |  || | || ||     | ||    ||| | ||||| | ||| |   ||| | |  |  |  ||                                                                      
GTTTTGGGGACACCGACTCGTGAGGAGATCAAGTGCATGAATCCGAACTACACAGAGTTCAAGTTTCCACAAATCAAGGCGCACCCGTGGCACAAAgtatgttttttgtgcgaatgctatgatgtcatcctgggtgttgcggttgtagtgcggtagtggatgtgggtcagcctttctcg-tgtagcggcattgttagttgcgtgcgtcgtggtttgttggatgttgggttttgacgacggtaaccggcgtttggtatggccgatgtgggaattgcag

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ07923 (Selaginella moellendorffii), 5'ss of exon 10
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaat-cgatatatgaccaagcttgtctcggtttagtgaggttgattgaagtatatgtg
|| || ||||| || ||  ||||||| |||||||||||||||||||||||||| || ||||| || |||||||| ||| | ||||| ||||||||||||       | |  |      |||| |    |  |  |||||| ||  |     |   ||                                        
GTCTTAGGTACTCCTACTCGGGAGGAAATCAAATGCATGAATCCAAACTACACGGAGTTTAAGTTCCCTCAGATTAAAGCGCATCCCTGGCACAAGgtaag--agcaatcatccggtatatctctctctctgtctctcttgatgtggctcgttgacag---------------------------------------

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 10
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaat-cgatatatgaccaagcttgtctcggtttagtgaggttgattgaagtatatgtg
|| || ||||| || ||  | ||||| |||||||||||||||||||||||||| || ||||| || |||||||| ||| | ||||| ||||||||||||       | |  |      |||| |    |  |  |||||| ||  |     |   ||                                        
GTCTTAGGTACTCCTACTCGCGAGGAAATCAAATGCATGAATCCAAACTACACGGAGTTTAAGTTCCCTCAGATTAAAGCGCATCCCTGGCACAAGgtaag--agcaatcatccggtatatctctctctctgtctctcttgatgtggctcgttgacag---------------------------------------

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ04915 (Selaginella moellendorffii), 5'ss of exon 9
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaatcgatatatgaccaagcttgtctcggtttagtgaggttgattgaagtatatgtg
||| | || || || ||  | ||||||||||| || |||||||| |||||||| ||||| || || ||||| || ||  | || ||||||||||||||     |  |          || |    |     |||  | |   | |  |  || |                                          
GTTCTTGGAACCCCTACTCGCGAGGAGATCAAGTGTATGAATCCCAACTACACGGAATTCAAGTTCCCTCAAATCAAGGCCCACCCTTGGCACAAGgtgcgtaggcaac--------ttctttgttggggcggtcgtttacgtagtaacgtggcag----------------------------------------

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ10962 (Selaginella moellendorffii), 5'ss of exon 9
GTTTTGGGTACACCAACAAGGGAGGAGATCAAATGCATGAATCCAAACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgctagtagtatcaattatcacctaatagggttctcttaatcgatatatgaccaagcttgtctcggtttagtgaggttgattgaagtatatgtg
||| | || || || ||  | ||||||||||| || |||||||| |||||||| ||||| || || ||||| || ||  | |||||||||||||||||     |  |          || |    |     |||  | |   | |  |  || |                                          
GTTCTTGGAACCCCTACTCGCGAGGAGATCAAGTGTATGAATCCCAACTACACGGAATTCAAGTTCCCTCAAATCAAGGCCCATCCTTGGCACAAGgtgcgtaggcaac--------ttctttgttggggcggtcgtttacgtagtaacgtggcag----------------------------------------

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|116422944|gb|EG465536.1|EG465536
EST:     ACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAG                         GTATTCCAGAAACGTCTGCCACCTGAAGCAGTAGATCTTCTTTGTAGGTTC
genomic: ACTACACAGAATTTAAATTTCCTCAGATAAAACCTCATCCTTGGCACAAGgtataccgct ... ttactttcagGTATTCCAGAAACGTCTGCCACCTGAAGCAGTAGATCTTCTTTGTAGGTTC