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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag

Basic information

species Arabidopsis thaliana
transcript AT5G57110.1
intron # 27
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: LOC_Os02g08010.1 (Oryza sativa), 5'ss of exon 9
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
||||| ||||||||||||||||| ||   |||||||||||| ||||| || || || || || || ||  |||||||||| |||||||||||||| |||||| |   || ||     ||    |  ||| | |   |||  ||  | ||| | ||  || |   ||  ||   ||      |||                                                                                                                   
GCAGACATTGGTCTTGCTATGGGTATCCAAGGAACAGAAGTAGCTAAAGAAAGCTCAGATATAATTATTCTGGATGACAATTTTGCTTCAGTTGTAAAGgtt-agggaagttggagcttaataatcttacaca---attaatttaacaaatgcct-taacatttatccatatgtaacgttctag-------------------------------------------------------------------------------------------------------------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 5'ss of exon 26
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
|||||||| |||||  | ||||| ||    ||||| ||||| || ||||||||||| || || ||||||||||||||||| ||||| || || || | ||| | | ||      || | ||||  | |     |||  |   || |        |  |  |  | |   || |   || |                                                                                                                       
GCAGATATAGGTCTCTCCATGGGCATCCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATCATCTTGGATGACAATTTTGCATCGGTCGTGAGGgtatgtaca------ctgtgttctgttattggccttccatgactgca-----acttatagtattcttttctctcgcttttag----------------------------------------------------------------------------------------------------------------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: GRMZM5G893864_T01 (Zea mays), 5'ss of exon 5
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
||||||||||||||| ||||||| ||   |||||||||||| || || ||||| || ||||| || ||  |||||||||| ||| |||| ||||| |||||||   | |       |||||  | | ||  |||       |||   | | |    || | |  ||| | |  |   |   || || || ||| |       | ||| |||                                                                                        
GCAGATATTGGTCTTTCTATGGGCATCCAAGGAACAGAAGTAGCCAAAGAGAGCTCAGACATAATAATTCTGGATGACAATTTTTCTTCTGTTGTGAAGgtttggccta-------tttttagaatctaaggatc------ttgataatacgcgcacatgcctaatacaacgttgtct---tacatgttctttat---cttttatattctag---------------------------------------------------------------------------------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: GRMZM2G138195_T01 (Zea mays), 5'ss of exon 2
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
 |||||||||||||  | ||||| ||    ||||| ||||| |||||||||||||| || || || |||||||||||||| ||||| || || || | |||      |  || |||  ||| |  ||| | | |    ||||   |     || |          |   |     |||||                                                                                                                       
ACAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGGgt------acgttaactgctttatcttttcttgttagccttgtgctactgtagtttatggtgtttgt---ttttggcttcag----------------------------------------------------------------------------------------------------------------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: GRMZM2G391042_T01 (Zea mays), 5'ss of exon 26
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
||||||||||||||  | ||||| ||    ||||| ||||| |||||||||||||| || || || |||||||||||||| ||||| || || || | |||      |  || |||  ||| |  ||| | | |    ||||   |     || |          |   |     |||||                                                                                                                       
GCAGATATTGGTCTATCAATGGGGATTCAGGGAACTGAAGTTGCTAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTTGCCTCGGTCGTGAGGgt------acgttaactgctttatcttttcttgttagccttgtgctactgtagtttatggtgtttgt---ttttggcttcag----------------------------------------------------------------------------------------------------------------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: GLYMA17G06520.1 (Glycine max), 5'ss of exon 28
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
|| |||||||||||||| ||||| ||   ||| |||||||| ||||| ||||| || || ||||| || ||||||||||| |||||||||||||| ||||||  | |  |||   | |||   |  || |  | |  | |  |  || |     |||| |    | |  | |||  ||  |  || | ||| ||  | | | || |                                                                                             
GCCGATATTGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCTAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAGgttagtcctcatttcttatttggaagattttgaactgttcttataaatga-----tgcatgtttaacatctacct--tttgaaggactatttctggcattacttgaa---------------------------------------------------------------------------------------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: GLYMA13G00420.1 (Glycine max), 5'ss of exon 26
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
|| |||||||||||||| ||||| ||   ||| |||||||| ||||| ||||| || || ||||| || ||||||||||| |||||||||||||| ||||||    |  |||   | |||   |  || |  | |  | |  |  || | |  | |   ||||  ||  |    |     |    |  ||| ||  | |                                                                                                    
GCCGATATTGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCTAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAGgttagccctcatttcttatttgagagattttgaactgttcttataaatgatgcac-gtttgacatctactttttgaaggttagtactcatttctggcatta---------------------------------------------------------------------------------------------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: GLYMA09G06890.1 (Glycine max), 5'ss of exon 25
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgt--aactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
|| ||||| |||||||| ||||| ||   ||| |||||||| || || ||||| || || ||||| || ||||||||||| |||||||||||||| ||||||| | | | ||     | || |  ||| |   |   ||| |||         |    ||      |||| |    ||  |   |   |  ||||  |   |||     | | | ||||    ||  |||||||    |  ||    |  || || |   || | |      |     |||| |                 
GCCGATATAGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCCAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAGgtttgtactactttgagatatttttatttgt---tctgttttttg---------ccattagtagtggaaatgcactttttga---acactgattgtaca---atgagaggtttatatagaagtgagg-tgcatttaatattgaagcacaactgatgatgacaattgtgtttctccatggttgtag-----------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: GLYMA15G18180.1 (Glycine max), 5'ss of exon 25
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatt---tttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
|| ||||| ||||| || ||||| ||   ||| |||||||| || || ||||| || || ||||| || ||||||||||| |||||||||||||| ||||||  | | | ||     | || || ||| |    |  |||||            |   |||   | |||| |    ||  |   ||  |  ||||  |   |||     | | | ||||    ||  ||||||   | |   ||    |  || || |   || | ||     |     |||| |                 
GCCGATATAGGTCTAGCAATGGGTATCCAAGGTACAGAAGTTGCCAAAGAGAGCTCCGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAGgttagtactactttgagatattttaatttgttctgttttttgtca---------ttagtagaagtagaaatgcactttttga---atactgattgtaca---atgagaggtttatatagaattgagg-tgcattgaatatttgaagcacaactgatgatgacaattgtttttctccatggttgtag-----------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 5'ss of exon 28
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaaattcacttttttc-tactttatagattcatttgt---tggataaaggtctgcaagacacataaatccctacttcaatagattttttttgtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
||||||||||||||||| ||||| ||  |||||||||| || || || ||||| || |||||||| |||||||||||||| ||||| |||||||||||||||  |     | || | |     || ||||     ||| | |    |   |||| | ||||||  | || ||||   |  ||  ||  | | ||      ||                                                                                                     
GCAGATATTGGTCTTGCAATGGGCATTTCAGGAACAGAGGTTGCAAAAGAGAGCTCTGACATCATTATCTTGGATGACAATTTTGCGTCAGTTGTCAAGgttagtctg--tgcattgtaagagtattttaagtgatcaatagcaaatatgtaaatgactgcaactcccacaaatgaatgttttcatccaatcttga-acaaa-----------------------------------------------------------------------------------------------------

upper sequence: AT5G57110.1 (Arabidopsis thaliana), 5'ss of exon 27
lower sequence: PP1S8_288V6.1 (Physcomitrella patens), 5'ss of exon 27
GCAGATATTGGTCTTGCTATGGGAATAGCAGGAACAGAAGTGGCTAAGGAGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgttt-attcaaattcacttttttctactttatagattcatttgttggataaaggtctgcaagacacataaatccctacttcaatagatttttttt-gtgaatccatgtatactatgtgtagatccaagaatgcatttttcgtaactgaatttgttgctactaagtattccaaccttaatttgtggtgatatatattatatag
|| || ||||||||| | ||||| ||||||||||| ||||| || || || |||||||||||||| ||| | |||||||| ||  |||| ||||| ||||||  |||| |     | ||  |||| | || || | |   ||||       | |   | |  | ||||         | |  |  |  |   || |||||   |  ||   | |   ||      || | |  || |  |    || | || |  ||        || |     | ||   | |                 
GCCGACATTGGTCTTTCAATGGGTATAGCAGGAACGGAAGTCGCGAAAGAAAGTTCGGACATCATTATCCTCGATGACAATTTCACTTCTGTTGTTAAGgttcgattcgatcagtcattcctctaatctagagttcctcatgttcagctttg-taacccaatcgcatagccgttgtatactttgcacgtccgttagtgaaggtacttactttttagttaatagttagtaggttttctctggggatgtacttatgtctg----acgtttctgttctgatcgctag-----------------

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|86081055|gb|DR376812.1|DR376812
EST:     AGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAG                         GTTGTTCGATGGGGGCGATCAGTGTATGCCAACATTCAGAAGTTCATCCAA
genomic: AGAGTTCGGACATCATCATCTTGGATGACAACTTTGCTTCAGTTGTCAAGgtttattcaa ... tattatatagGTTGTTCGATGGGGGCGATCAGTGTATGCCAACATTCAGAAGTTCATCCAA