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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtttgtctagaatttttacaactttagaaaagtcagtgtctatcttgttagtgttaattagtcgctattcattaatccgcag

Basic information

species Arabidopsis thaliana
transcript AT3G25800.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 5'ss of exon 10
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtt-tgtctagaatttttacaactttagaaaagtcagtgtctatcttgttagtgttaattagtcgctattcattaatccgcag--------------------
||   ||||||| | ||||||||||| |||||  | ||||| || |||||||| |||||||| |||||||| ||||| |||||| | ||||||||| | | || ||| |||  | | |    |   |  |  | | |   |  |   ||||  |  |    ||  ||     | ||                    
GTCTTCTCAATCAGAGATGCTGCTGCAAACAACTTGAAGCGCCTAGCTGAGGAGTTTGGTCCAGAATGGGCGATGCAGCATATAATCCCTCAGgttatttataaaatatttgaaccctagtcagtatttgcatttgt---gaaatccttaagcaagctgacttttttgtaatgtagctctactggaagtctggaac

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G102858_T01 (Zea mays), 5'ss of exon 10
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtttg-tctagaatttttacaactttagaaaagtcagtgtctat---cttgttagtgt-taattagtcgctattcattaatccgcag-------------
|||  ||| ||| | ||||||| ||| || ||| | |||||  |  | ||||||||||| ||||| ||||| |||||||||||| ||||||||||| | | ||| | | | | || | ||  |   |   |  | ||    || ||| | | |  |||  |  ||  | || |   |                
GTTTTCTCGATCAGAGATGCTGGTGCCAATAATTTAAAGCGTTTGACAGAGGAATTTGGCCCTGAGTGGGCGATGCAACATATAATTCCTCAGgttagctttagtactgtgaaaaatgtaatagcatttattgcgataaatttcttattttgttcttaagctttaaaccttgacttgagcaaatacatgagtc

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G164352_T03 (Zea mays), 5'ss of exon 10
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtt-tgtctagaatttttacaactttagaaaagtcagtgtctatcttgt---tagtgttaa--ttagtcgctattcattaatccgcag------------
||    |||||| | |||||||| ||||||||  | ||||| ||||| || || |||||||| || ||||||||||| |||||| | ||||||||| | | || | | | |  |    |   |    |     || |  |||   || | | |   ||  |    ||| ||| |||  |||            
GTCTTTTCAATCAGAGATGCTGCCGCTAACAACTTGAAGCGCCTTGCAGAAGAGTTTGGTCCAGAGTGGGCAATGCAGCATATAATCCCTCAGgttatttatatactatctcaataccttatatttcctacaactgtgctgtgcataatataatccttgatgctaatttatttatcaacagtagctacaacat

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G122135_T02 (Zea mays), 5'ss of exon 10
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGg---tttgtctagaatttttacaactt-tagaaaagtcag-tgtctatcttgttagtgtta-attagtcgctattcatt---aatccgcag
||   ||||||| | |||||||| || |||||  | ||||| ||||| || || || ||||| || ||||||||||| |||||| |||||||||   ||| ||||  || |  | | ||| ||       ||  |||  ||  | | |   ||  |||    || |    ||     | | |||
GTCTTCTCAATCAGAGATGCTGCCGCCAACAACTTGAAGCGCCTTGCGGAAGAGTTCGGTCCAGAGTGGGCAATGCAGCATATAATTCCTCAGgttatttatctactatgtcaataccttgtatttcctacaactgtgcataatataatccttctatttcctgcaacctgttctgttttcccag

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA02G10790.2 (Glycine max), 5'ss of exon 10
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtt--tgtct-------agaatttttacaactttagaaaagtcagtgtctatct-----tgttagtgttaattagtcgctat-tcattaatccgcag---
||||| || ||||| || || |||||||||||| | ||||| || ||||| |||||||||||||| ||||| |||||||| ||| |||| ||||||  |||||       |||||| |||   |  ||  | |  |  || |||| |     |||| |||||  |  ||  || | || |  |   | |    
GTTCATTCGATCCGTGAGGCAGCTGCTAACAATTTGAAGCGCCTAGCTGAAGAATTTGGTCCTGAGTGGGCTATGCAACACATAATTCCACAGgttcatgtcttggcttaagaattattatttcagtattatacactatgcctatatgaatgtgtttgtgttggtatgtttctgtatcttctacttgaatttc

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 10
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtttgtcta--gaatttttacaactttagaaaagtca-gtgtctatct-tgttagtgttaattagtcgctattcattaatccgcag------------------------------------------------------------------------------------------
||||| ||||| || || || |||||||||||  | || || |||||||| |||||||||||||| ||||| ||||| || ||| |||||||||||  ||||   | ||  |  |   |||   || | |     | |  | ||| |   |||||| |||  | |   ||  |  |||                                                                                           
GTTCATTCAATTCGTGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAAGAATTTGGTCCTGAGTGGGCTATGCAGCACATAATTCCTCAGgttcatctatttacttaatttattattaacgaaatgatacaccaacatatgtcaacattaattcgtctgtgtgggtttttgtgcatgtcttgaaatatatgtttgctatatgctattaccttttctattctcccaagtgtaacttcagaagtatctatatggaatgtgtggaacag

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 10
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtttgtctagaattttta--caactttagaaaagtca-gtgtctatct-tgttagtgttaattagtcgctattcattaatccgcag--------------------------------------------------------------------------------------------------
||||| ||||| ||||| || |||||||||||  | || || |||||||| |||||||| ||||| ||||| ||||| || ||| |||||||||||  ||||     || |   |   |||   || | |     | |  | ||| |   |||||| |||  | |   ||  |  |||                                                                                                   
GTTCATTCAATTCGCGAAGCAGCTGCTAACAACTTGAAACGCCTTGCTGAAGAATTTGGACCTGAGTGGGCTATGCAGCACATAATTCCTCAGgttcatctatttgcttaatttattattaacgaaatgacacaccaacatatgtcaacattaattcgtctgtgtaggtttttgtgcatgtctagtggaaattgaaatatatgcttgttatatgctattacttcttctattctcctaagtgcaacttcagaagtatctatatggaatgctggaacag

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 5'ss of exon 9
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtttgtctagaatttttacaactttagaaaagtcagtgtctatctt--gttagtgttaattagtcgctattcattaatccgcag----------------
||| |||| || || |||||||||||||||||  | ||||| ||||| || |||||||||||||| ||||||||||| ||  || |||| |||||||||||||   || |   | || |      | |||| ||       | |||||   || |||  | | |  | |                        
GTTTACTCCATTCGTGATGCTGCTGCTAACAACTTAAAGCGCCTTGCAGAAGAATTTGGTCCTGACTGGGCAATGCAGCACTTAATTCCACAGgtttgtctagtggttgtgacaattaattgctattagtggcttgtaaaggatagtggatatgagtttcaaattctcatcttatttcattttggtttgtctc

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: PP1S214_34V6.1 (Physcomitrella patens), 5'ss of exon 9
GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtttgtctagaatttttacaactttagaaaagtcagtgtctatcttgttagtgttaattagtcgctattcat-taatccgcag------------------------------------------------------------------------------------------
||  |||| ||||| || || ||||| |||||||||||||| ||||| || || ||||||||||| |||||| |||| || ||  |||| |||||          ||| ||  | | |||  | |  | | |||   |    |||||  | | || |   || |  ||   | |||                                                                                          
GTGTACTCTATCCGAGAGGCAGCTGCCAACAATCTCAAGCGTCTTGCCGAAGAGTTTGGTCCTGAGTGGGCATTGCAGCACATCATTCCACAGgtactc----gctttataagattgtagtgagg--actatcttggtaacgagtgtagaatcgtgggcttttacatacagcacaggcttgtctatctgtcagatccgttaaacatgagataactttcattcaattcctacgttattgttttctgatgaattggtgggacttgcag

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|125197471|gb|EL212425.1|EL212425
EST:     TTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAG                         GTTCTTGAGATGG
genomic: TTGCTGAGGAATTTGGTCCTGAATGGGCAATGCAACATATAGTTCCTCAGgtttgtctag ... taatccgcagGTTCTTGAGATGG
EST: gi|124901697|gb|EH975777.1|EH975777
EST:     TAGTTCCTCAG                         GTTCTTGAGATGGTTAACAACCCTCACTATCTCTACCGAATGACCATTTTG
genomic: TAGTTCCTCAGgtttgtctag ... taatccgcagGTTCTTGAGATGGTTAACAACCCTCACTATCTCTACCGAATGACCATTTTG