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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag

Basic information

species Arabidopsis thaliana
transcript AT3G11130.1
intron # 24
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 24
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag
 || |||||||| || ||||||||||||||||||||||||||||||||||| ||||| ||||| || || ||||| ||||| || || |||||  | |||||  ||| | |  ||   |  |||    ||||      | |   ||| ||  ||   | | |    ||     |  ||||| ||| |   || |  ||  ||||
GGCTAACAGTGCTAAAACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCCGAGGAGTTCCGGCTAGCACAAATATGTGGTCTCAATATTATTGTCCAGgtatatatacaggagcaacctgtt----agaa-----ctaaaacatatttcagtacaagtcttttcttatctagattttttctaacaccctttt--ttgtatag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 24
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag
 || |||||||| || ||||||||||||||||||||||||||||||||||| ||||| ||||| || || ||||| ||||| || || |||||  | |||||  ||| | |  |    | |       ||||      | |   ||| ||  ||   | | |    ||     |  ||||| ||| |   || |  ||  ||||
GGCTAACAGTGCTAAAACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCCGAGGAGTTCCGGCTAGCACAAATATGTGGTCTCAATATTATTGTCCAGgtatatatacagga----ccaacctgttagaa-----ctaaaacatatttcagtacaagtcttttcttatctagattttttctaacacccttttttttgtatag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GRMZM2G325285_T01 (Zea mays), 5'ss of exon 14
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgag------aaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaa--tatttttgtgctttaatag--
 || |||||||| || ||||||||||| |||||||||||||||||||| || ||||| ||||| || || ||||| ||||| || || ||||| || |||||  | || ||  ||  | || ||    |         ||| | |   |||||   | | ||| ||  | ||  | |||   ||| |   |  |  ||||||  |||  |    
GGCTAACAGTGCCAAAACATGGAAGGAGGTCTGCTTTGCTTGTGTTGACGCCGAGGAGTTCCGTCTTGCACAAATTTGTGGTCTCAATATTATTATTCAGgtatacaagtaggagcacatacttaataatttttttgtagtatctgctttatagcagagcttctatcactatgatctatttttttctcatatctgcttttgtatttttgtttag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GRMZM2G057576_T02 (Zea mays), 5'ss of exon 22
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag------
 || |||||||| || ||||||||||| |||||||||||||||||||| || ||||| ||||| || || ||||| ||||| || || |||||  | |||||  | || ||  ||  | || ||   ||     ||   ||||  |  ||   || |||  |   | |  |||   | ||| | | ||   ||  ||||  |        
GGCTAACAGTGCTAAAACATGGAAGGAGGTCTGCTTTGCTTGTGTTGACGCGGAGGAGTTCCGTCTTGCACAAATATGTGGTCTCAATATTATTGTTCAGgtatacaagtaggagggcatacttgatgattt--ttccctagtctttgttttattgcaaagtttctatgatatatttctttctgacatacctgctcttttttttgtttag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 1
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccga-----gaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatat----ttttgtgctttaatag--
 || |||||||| || ||||||||||| |||||||||||||||||||| || ||||| ||||| || || ||||| ||||| || || |||||  | |||||  | || ||  ||  | || ||    |        ||| | |   |||||   | | ||| ||  |  |  | |||   ||||| | ||||    ||||||  |||  |    
GGCTAACAGTGCCAAAACATGGAAGGAGGTCTGCTTTGCTTGTGTTGACGCCGAGGAGTTCCGTCTTGCACAAATTTGTGGTCTCAATATTATTGTTCAGgtatacaagtaggagcacatacttgataattttttgtagtatctgctttatagcagagcttctatcactgtgatctatttttttttctcatatctgcttttgtatttttgtttag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GRMZM2G111355_T02 (Zea mays), 5'ss of exon 5
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgag-----aaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatat--ttttgtgctttaatag--------------------------------------------------------------------
 || |||||||| || ||||||||| | |||||||||||||||||||| || ||||| ||||| || || ||||| ||||| || || ||||| || |||||  | || ||  ||  | || ||    |        ||| | |   |||||   | | ||| ||  | ||  | |||   ||| |   || |  ||||||  |||  |                                                                      
GGCTAACAGTGCCAAAACATGGAAGAAGGTCTGCTTTGCTTGTGTTGACGCCGAGGAGTTCCGTCTTGCACAAATTTGTGGTCTCAATATTATTATTCAGgtatacaagtaggagcacatacttaataattttttgtagtatctgctttatagcagagcttctatcactatgatctatttttttctcatatctgcttttgtatttttgtttaggtcgatgatgccttccttacaaagtaaatggtcctctccttgcccccagttatgatctgtttatag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GRMZM2G395549_T01 (Zea mays), 5'ss of exon 9
------------------------------------------------------------------------AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag-----
                                                                         || |||||||| || || |||||||| |||||||||||||||||||| |  ||||| ||||| || || ||||| ||||| || || |||||  | ||| |  | || ||  ||  | || ||     ||   ||   || |  |  ||   || |||  |   | |  |||   | ||| | | ||   ||  ||||  | |     
AAACTGGGCTAAGCTGGCTGTTACCCTGGTTAAGCTGAAGCAATACCAAGGTGCTGTGGATGCTGCTCGCAAGGCTAACAGTGCTAAAACGTGGAAGGAGgtctgctttgcttgtgttgacgtggaggagttccgtcttgcacaaatatgtggtctcaatattattgttcagatatacaagtaggagggcatactt-----gatttttccctattctttgttttattgcaaagtttctatgatatatttctttctgacatagctgctctttttttgtttag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GLYMA14G06340.1 (Glycine max), 5'ss of exon 24
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgagaaagttt-tttagttataattgggtttcaatttcaattttgta-tgcctttttgtaatatttttgtgctttaatag
||| |||||  ||||||||||||||||||| |||||||||||||||||||| ||||| || ||  |||| ||||| |||||||| |||||||| || |||||    | ||      | |   ||   ||  || | | | |    ||      |  |   | |  || | | |  |  ||| |  | |  |  ||       |   
AGCCAACAGCTCAAAGACATGGAAGGAAGTTTGCTTTGCTTGTGTTGATGCAGAGGAGTTTCGTTTGGCCCAAATTTGTGGACTAAACATTATTATTCAGgta---atatgttgatttcagttttttgatgaactgtgtgtgcccatgcacacgcgtgcgtgtatatataggaacgtttttcttcatttctgatgcagaccga---

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 24
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag----
||| |||||| ||||||||||||||||||| |||||||||||||||||||| ||||| || ||  |||| || || |||||||| ||||||||  | |||||  |||  |    |||   ||||     ||     | |    | |   || || |  || |  || | | |     |||  |||| || |  |||   |        
AGCTAACAGTTCAAAGACATGGAAGGAAGTTTGCTTTGCTTGTGTTGATGCGGAGGAGTTTCGTTTGGCCCAGATTTGTGGACTCAACATTATTGTTCAGgta-atatgtt---gatttcagtttttttgatgaactgtg---tgtgtgtgtgtatatatatatatataggaacgtctttcttaat-ttctgatgccagaccgagttc

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 23
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtgg-ataaataacagatcctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag-
||| ||||||||||| |||||||||||||| |||||||| |||||||| || ||||| |||||  |||| || || ||||| ||||||||||| || |||||   ||   |    | | | |  ||   |   |  |||| |  |  || |||  ||   |||   || |  | ||  |  | | ||    ||    ||  | || 
AGCTAACAGTGCAAAAACATGGAAGGAAGTTTGCTTTGCATGTGTTGACGCAGAGGAGTTCCGTTTGGCCCAGATATGTGGGCTTAACATTATTATTCAGgtaatatgtttgtttgttgccaagtcttcaactaaattttgaaatg-aactggaatttgtttttctttattca-gctatcatctgat----ttacaattagaaagt

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 23
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagat--cctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag
||| ||||||||||| |||||||||||||| |||||||| |||||||| || ||||| || ||  |||| || || ||||| ||||| ||||| || |||||  |||  |      |  ||||||    ||  || ||||  | | |  | |||  ||   |||   || |  | ||  |  | | || ||   ||     | |  
AGCTAACAGTGCAAAAACATGGAAGGAAGTTTGCTTTGCATGTGTTGACGCGGAGGAGTTTCGTTTGGCCCAGATATGTGGGCTTAATATTATTATTCAGgta-atatgttgttttttgcctagtctttgactaaattttgaaatga--actggaatttgtttttctttattca-gctgtcatctgat-ttccagttagaaagtt-

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 24
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtgg---ataaataacagatcctagttcccga-gaaagttttttagttataattgg--gtttcaat-ttcaattttgtatgcctttttg----taatatttttgtgctttaatag----------------------------------------
 || |||||  |||||||||||||||| || |||||||||||||||||||| || || |||||  | ||||| || ||||| || |||||||| ||||||||     ||   |     |   |||     || || |   |  ||   ||   | |  |||||||  ||   || ||||||   ||       |||| |||| |   ||| ||                                          
GGCTAACAGCTCAAAGACATGGAAGGAGGTTTGCTTTGCTTGTGTTGATGCAGAAGAGTTCCGCTTAGCTCAGATATGTGGTCTCAACATTATTATACAGgtaatgtattgttttttaagggtagggtgggatgataacatcataaaaatggattgttgtttcaaaatttccttctgtatgagcttccaagcctaatgttttcgcttttttattatcaggtctaatttcctagtgtattgatttgaattttgtag

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: PP1S147_10V6.1 (Physcomitrella patens), 5'ss of exon 12
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgt--ggataaataacagatcctagttcccgagaa-agttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag
 || || || |||  |||||||||||||||||||||||||||||| || || || || ||||| ||||||||||| ||||| || ||  ||||  | |||||  |||||  |  | | |  ||  |   |  |  ||  |  |  || || |  |    |||      ||||   | |  |  | |  | |  | || ||  |    
GGCCAATAGCGCACGGACATGGAAGGAAGTCTGCTTTGCTTGTGTGGACGCCGAAGAGTTCCGCCTGGCTCAAATTTGTGGTCTCAATGTTATTGTCCAGgtatggataggtttctgctgttacattttgcaattagcctcatgattttactacg----caaccatgcttttcattactatcatatgttctaatcgtactgaag---

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: PP1S7_102V6.1 (Physcomitrella patens), 5'ss of exon 12
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatcctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag--
 || |||||||||  ||| |||||||||||||||||||||||||| ||||| || || || || ||||||||||| ||||| || ||  ||||  | |||||  || || | |   | ||| | |    || |     | |||| |  ||| ||||    || |     ||       ||  | |  || ||||    | ||    
GGCCAACAGTGCACGGACGTGGAAGGAAGTCTGCTTTGCTTGTGTGGATGCCGAAGAGTTTCGTCTGGCTCAAATTTGTGGTCTCAATGTTATTGTCCAGgt--atgaaaagcc--ttctaatgcttc-gacatccgatcagttttc-ttgagttttctgtttatcaaggttctttccttgattagtttgttgtttcatgatgtgc

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 5'ss of exon 24
AGCAAACAGTGCAAAGACATGGAAGGAAGTCTGCTTTGCTTGTGTTGATGCTGAGGAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaataacagatc--ctagttcccgagaaagttttttagttataattgggtttcaatttcaattttgtatgcctttttgtaatatttttgtgctttaatag
 || || |   ||  ||| ||||||||||| || || ||||||||||||||||||||||| ||| | || |||||||| || |||||  | ||  | ||||||  |  || |    ||  | |  ||   |||   ||  ||||||   | |   ||| |   |||  | |||| |         ||   |  ||    |||   |
GGCCAATAACTCACGGACTTGGAAGGAAGTGTGTTTCGCTTGTGTTGATGCTGAGGAATTTCGATTAGCGCAAATCTGCGGTCTTAATGTCATTGTCCAGgtgattttattatttttcaaccaagtctt-agatgattacttagtt--gactacctttaa---tcagctgtgtaaggagaagaaaaaatctgatgcaagttatctg

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|125210974|gb|EL225928.1|EL225928
EST:     GAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAG                         GTGGATGACCTGGAAGAAGTAAGCGAGTACTACCAGAACAGAGGATGC
genomic: GAATTCCGACTGGCTCAAATCTGTGGACTTAACATTATCATACAGgtggataaat ... gctttaatagGTGGATGACCTGGAAGAAGTAAGCGAGTACTACCAGAACAGAGGATGC