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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaattccagaaccatggtgctttcattttttccatatctcctctcgaaagacgcaactaaatatattggggatttcag

Basic information

species Arabidopsis thaliana
transcript AT1G29890.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os05g50510.1 (Oryza sativa), 5'ss of exon 9
TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaattc-cagaaccatggtgctttcattttttccatatctcctctcgaaagacgcaactaaatatattgggga--tttcag----------------------------------------------------------------------------------------------
 ||  || || | || |  ||||| || ||||||||| ||||||| |||||||| ||||||||||| || || ||||| ||||| || || || || | ||||| |         ||||      |||||  ||| | |       |   ||     | || |||||  | |    |||||                                                                                               
CAAGGCAAACTTACCCCTGCTACATGAGTGGCATTTCCGATCTGGCCTTGATCGATACATATGGATTATTGGAATGATCTATGCTTACTTCCACCCTAATgtaagtaattcggttatgg-atccacatttcctccctttggaactgcatgagtgagcagtacatataccgtgttcctttcatacatttcttcctagggagttctctcttattttaagaatatgttccttgtttatactatatattaatgtagcatggaatccgctatctgaaatag

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G076394_T01 (Zea mays), 5'ss of exon 9
TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaa---ttccagaaccatggtgctttca-----ttttttccatatctcctctcgaaa--gacgcaactaaatatattggggatttcag-------
|||     || | || |   ||||||||||||  ||| | ||||| |||||||| |||||||||||||| || ||||| ||||| || ||||| ||||  ||||   ||| | |   |     | ||||     | | ||   | | |||||   |    ||   ||  |   ||       ||            
TAAGATGAACTTACCCCTGTTACACGAATGGCGCTTCCGCTCTGGCCTTGATCGTTACATATGGATCATTGGAATGATTTATGCTTACTTTCACCCCAACgtaagtgttctaaagagaactgacattcatggagtgtgttaagtgtttcctccttatgttgatctaaacatgcatgccttctatcctgacaacaag

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G458538_T01 (Zea mays), 5'ss of exon 4
TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaatt-ccagaaccatggtgctttcattttttccatatctcctctcgaaagacgcaactaaatat-attggggatttcag--------------------------------------------------------------------------------------------
 ||  || || | || |  ||||| || ||||||||| ||||||| || ||||| ||||||||||| || || ||||| ||||| || || ||||| | ||||| |     |   ||||  | |  |||      ||  | |     ||  |   | || | || | |||||  |  ||                                                                                              
CAAGGCACACTTACCCCTGCTACATGAGTGGCATTTCCGATCTGGCCTCGATCGATACATATGGATTATTGGAATGATTTATGCTTACTTCCATCCTAATgtaagtatttcagttatgg-acctatattaccctgatcaccctctgagactgtatctacgagatgttattggatacgtctcgatatattttccctaatctctatatatattaagcatcgtttcttttgttcagatcatgttaaccttaacatggagccttttgacgtaaacag

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA05G25780.1 (Glycine max), 5'ss of exon 10
TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaattccagaaccatggtgctttcat--tttttccatatctcctctcgaaagac-gcaactaaatatattggggatttcag-----------------
 || || || || || ||  | || || ||||||||||||||||| |||||||||||||| ||||| || || ||||| ||||| ||||||||||| | ||||||  |  |  |  | |  | |  |  |  ||   ||  |  | |   |  |  |    |  |  ||||    |||| |                  
AAAGCCTGATCTCCCTCGAATGCATGAGTGGCATTTCAGATCTGGGCTTGATCGCTACATCTGGATAATTGGAATGATTTATGCCTATTTTCATCCAAATgtaatctcgaatactagcttttgtagtggtcattgggtaattttttttatataatagttggtccagctattttaaatttgaaatatttcaccatctcag

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA08G08730.1 (Glycine max), 5'ss of exon 10
TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaat-tccagaacca-------tggtgctt--------tcattttttccatatctcctctcgaaagacgcaactaaatatattg-gggatttcag
 || || || || || ||  | || || ||||||||||||||||| |||||||||||||| ||||| || || ||||| ||||| || |||||||| | |||||| ||||  || |       ||||| |         |  |||||   |||| |  ||  |  |     || |  | |||||     || ||||
AAAGCCTGATCTCCCTCGAATGCATGAGTGGCATTTCAGATCTGGGCTTGATCGCTACATCTGGATAATTGGAATGATTTATGCCTACTTTCATCCAAATgtaatctccaatactagcttgtgtggtggtcattgggtattttttttataatatttagtccagctattttaaatttgaaatatttcaccatctcag

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv10s0003g02830.t01 (Vitis vinifera), 5'ss of exon 4
TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaattcca---gaaccatggtgctttcatt-ttttccatatctcctctcgaaagacgc-aact---aaatatattggggatt-tcag
||||| ||  || || || || || ||||||||||| |||||||| ||||||||||| || ||||||||||| ||||||||||| |||| ||| || | |||||||       |    |||| |  | ||  ||||  |  ||| || ||      | | ||||   |||||||||     || | ||
TAAACAAGGTCTCCCTCGACTGCATGAATGGCATTTTAGATCTGGGCTTGATCGCTATATTTGGATCATCGGAATGATATATGCCTATTATCACCCTAATgtaatttttttcaagtattggtacaatgatgattttatagctcttctttctccgtccactaactggtaaatatattttttgttcttag

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S74_21V6.1 (Physcomitrella patens), 5'ss of exon 9
TAAACCAGACCTTCCACGT--CTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaattccagaaccatggtgctttcattttttccatatctcctctcgaaagacgcaactaaatatattgggga-tttcag-----------------------------------------------------------------------------------------
  ||  || ||| |  | |  || ||||||||||||||||||||||| || || || || || ||||| || |||||| | ||||| ||||||||||| || |||  ||             | |||      |  | |  |  | | |  |||  |    | |   | ||  |  |||| |                                                                                         
--AAAGAGCCCTGCGCCTTTGCTTCACGAATGGCATTTCAGATCTGGGCTCGACCGATATATCTGGATTATTGGCATGCTCTATGCCTATTTTCATCCTACGgtatgtc---gttttgaccaccttctaaccgtagaaaaatggtttggttagatcccgtaagagtgagtgttgcctttccgctgtgacttactacagaattgtatttattgcaaaagtttgtaagtttcgcatgattgaacatctttatttgtgaactacatgtttccag

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S5_239V6.1 (Physcomitrella patens), 5'ss of exon 9
-TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaattccag--aaccatggtgctttcattttttccatatctcctctcgaaagacgc-aactaaatat-attggggatttcag------------------------------------------------------------------------------------------------------------------
    |||   |   ||  | || || ||||||||||| ||||| ||||| ||||| || || |||||| |||||||| | ||||| ||||| ||||| || |||  |  |      ||   |  ||  ||   |   |   |   |  || | |   |  | ||||| | | |||   |||||                                                                                                                   
TGCGACCCCGCAGCCCTTG-CTTCATGAATGGCATTTTAGATCAGGACTGGATCGATATATTTGGATCGTCGGCATGCTCTATGCTTATTTCCATCCAACGgtatgttgatttggtcacc-taattctatcggtagaagggcgatttacgcatgttcctgaataaatgtgagtggtcttttcattttgacacgtagtacagatacgcagttatggctacggcgcgttaatttttcgaaattacagagggctcacttccacatatttgacaatgcttttcatgaacttcatgttggcag

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S357_34V6.1 (Physcomitrella patens), 5'ss of exon 9
TAAACCAGACCTTCCACGT-CTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaattcca---gaaccatggtgctttcattttttccatat--ctcctctcgaaagacgcaactaaatatattggggatttcag----------------
 ||| ||  ||   | | | || || |||||||| |||||||| ||||| ||||| ||||| |||||  | |||||| | ||||| ||||||||||| || ||| |  ||   | ||  | ||      |       | |||   |    |   |   |||| |    | | |      |||| |                
-AAAGCACCCCACTCCCTTGCTGCATGAATGGCACTTCAGATCAGGACTGGATCGATACATCTGGATTGTGGGCATGCTCTATGCGTATTTTCATCCTACGgtattaacatttggacttttgtttcgaaagaaaagacgtatagttatcgtttgagttcgcagcatgttgtgtactaagtttctggcattcttgtcatgac

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|125241019|gb|EL255104.1|EL255104
EST:     TCGCTACATATGGATCATCGGCATGATATATGCATATTTTCAATCCCACT                         GTAGAAAGATGGATGGAG
genomic: TCGCTACATATGGATCATCGGCATGATATATGCATATTTTCA-TCCCACTgtaattccag ... gggatttcagGTAGAAAGATGGATGGAG