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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGACTATTGGCTGTTGAAGGGTGTGCAGCTCTTGGAAAGTTGTTGGAACCTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgagctttgtttttttcattcatggatttttcagttaattgtctgctgttccatgtttaattttcatcggtaaaagcttgctgttctgatgtttttctatggtgtttgtattgatttctgagagcag

Basic information

species Arabidopsis thaliana
transcript AT1G25490.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 5'ss of exon 4
GAGACTATTGGCTGTTGAAGGGTGTGCAGCTCTTGGAAAGTTGTTGGAACCTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgagctttgtttttttcattcatggatttttcagttaat----tgtctgctgttccatgtttaattttcatcggt----aaaag--cttgctgttctgatgtttttctatggtgtttgtattgat--ttctgagagcag-------------------------
  |  | ||||| |||||||| ||||| |||||||| || ||||||||||| || |||||||| ||||  ||  | || |||||||| |||||||| ||||| ||||   |      ||  |   ||| |  |  |  | || ||      | |  | ||   |     |  |||||  ||    | | |  | || || || ||  |  |||| | || | |||    ||  || ||| | |                           
ACGCTTGTTGGCAGTTGAAGGCTGTGCTGCTCTTGGGAAATTGTTGGAACCACAAGATTGTGTAGCACATATCCTTCCAGTTATTGTCAATTTCTCCCAGgtaaattacacccctacttggtacctca-gtgtcatctacttgatatcacatataatatttatttgcagacattcattagttgctagaggttcctgatgctccgagttgcttctgttgtatgtgttaccataattatgacatcttttactctctgtaactcattaaatag

upper sequence: AT1G25490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G102858_T01 (Zea mays), 5'ss of exon 4
GAGACTATTGGCTGTTGAAGGGTGTGCAGCTCTTGGAAAGTTGTTGGAACCTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgagctttgtttttttcattcatggatttttcagttaa---------ttgtc--tgctgttccatgtttaattttcatcggtaaaagcttgct--gttctgatgtttttctatggtgtt-tgtattgatttctgagagcag---------------------------------------------------
| |||||||||| ||||| || ||||| |||||||| ||||||||||| || || |||||||  ||||  ||| | || |||||||| ||||||||||||||  ||    |    ||||  |   | |   | | ||  |  ||         |||||  | ||  | |  ||  || || |    |||| |  |   |  | |||| |  |   | ||  | |  |||  | |  | | ||  ||                                                    
GCGACTATTGGCAGTTGAGGGTTGTGCTGCTCTTGGGAAGTTGTTGGAGCCCCAAGATTGTGCAGCACATATTCTCCCAGTTATTGTAAATTTCTCTCAGgtatatcttacacacttttggtggcttaataaatgttgggagaaaagataaagttgtcaatactaattctcgtaaaaattactagagtaagatttccataagatctgctactagacaataatttcatgtgcttaagtttcagcacactaccatacatggttaatgatttcaattgcttatgttttcttaacatctcag

upper sequence: AT1G25490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G122135_T01 (Zea mays), 5'ss of exon 4
GAGACTATTGGCTGTTGAAGGGTGTGCAGCTCTTGGAAAGTTGTTGGAACCTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgagctttgtttttttcattcatggatttttcagttaattgtctgctgttccatgtttaattttcatcggtaaaagcttgctgttctgatgtttttctatggtgt-ttgtattgatttctgagagcag-----------------------------------------------------------------
| |  | |||||||||||||| ||||| |||||||| || |||||||| || || |||||||| || | |||| | || || ||||| |||||||| |||||  ||||  ||    | ||       ||  ||||| |||  | |  | |||| |||  |||  |  | | || || | |    |  |    || |     |  ||  | | | | | |    ||| ||    |                                                                 
GCGTTTGTTGGCTGTTGAAGGTTGTGCTGCTCTTGGTAAATTGTTGGAGCCACAAGATTGTGTAGCTCACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattg--ctcccatgttggaccctatacattttgcagcaagtaatttgct-ttctttgtggatatattattgggagacatgtttttagttgctagaggttgataatttctcggagtcgcctcttagttttgcaacttgctgcagttcagtgcattaccgctgataaatgctacttgcatatactcgctttgtttag

upper sequence: AT1G25490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
GAGACTATTGGCTGTTGAAGGGTGTGCAGCTCTTGGAAAGTTGTTGGAACCTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgagctttgtttttttcattcatggatttttcagttaattgtctgctgttccatgttt--aattttcatcggtaaaagcttgctgttctgatgtttttctatggtgtttgtattgatttctgagagcag
| | || |||||||||||||| ||||| || ||||| || ||||||||||| || ||||| || |||| |||| | || || ||||| |||||||| |||||  ||||    |    | ||  |  |||  ||  | |||  | |  | |||| |||  ||| |  || | | ||     | | |   |   |  ||  ||                                  
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattg---ctcccatgttggacccatacatcctgcagcaagtaatttgct-ttctttgtctggaaatattattccccagaccccacccgtgggagcttcca-------------------------------

upper sequence: AT1G25490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 4
GAGACTATTGGCTGTTGAAGGGTGTGCAGCTCTTGGAAAGTTGTTGGAACCTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtg---aattgagctttgtttttttcattcatggat-ttttcagttaattgtctgctgttccatgtttaattttcatcggtaaaagcttgctgttctgatgtttttctatggtgtttgtattgatttctgagagcag
 ||| | |||||||| || || ||||| |||||||| ||| ||||||| || || |||||||||||||  ||  | || ||||||||||| ||||| |||||     || |    | | | | |  ||  ||  |      ||   |  | | | ||      || |  ||||  |   | |||| |    || |   |   |                                  
CAGATTGTTGGCTGTGGAGGGCTGTGCTGCTCTTGGCAAGCTGTTGGAGCCACAAGATTGTGTTGCACATATACTCCCGGTTATTGTTAACTTCTCCCAGgtacatgataggaactggatatatatatatatatacacacacacacagatatatactagcttctgat--atttggaataggaaaa-cagaatgataaaacagt----------------------------------

upper sequence: AT1G25490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 4
GAGACTATTGGCTGTTGAAGGGTGTGCAGCTCTTGGAAAGTTGTTGGAACCTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaat--tgagctttgt-ttttttcattcatggatttttcagttaattgtctgctgttccatgtttaattttcatcggtaaaagcttgctgttctgatgtttttctatggtgtttgtattgatttctgagagcag
 ||| | |||||||| || || ||||| |||||||| ||| ||||||| || || |||||||||||||  ||  | || ||||||||||| ||||| |||||  ||  |  |   ||| | | |  ||  ||  || | | |  ||  | | |  ||    |        |   ||  | || ||           |||                                     
CAGATTGTTGGCTGTGGAGGGCTGTGCTGCTCTTGGCAAGCTGTTGGAGCCACAAGATTGTGTTGCACATATACTCCCGGTTATTGTTAACTTCTCCCAGgtacatgataggaactgtatatatatatatatatatatat-atatatatatataatgagagacaagcttctgatatttggaataggaaaacagaacgataa-----------------------------------

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|124917467|gb|EH991341.1|EH991341
EST:     TTTTACCTGTTATTGTTAATTTCTCTCAG                         GATAAATCTTGGAGGGTGCGCTACATGGTTGCTAATCAGCTATATGAACTT
genomic: TTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgag ... ctgagagcagGATAAATCTTGGAGGGTGCGCTACATGGTTGCTAATCAGCTATATGAACTT
EST: gi|86067631|gb|DR363388.1|DR363388
EST:     CTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAG                         GATAAATCTTGGAGGGTGCGCTACATGGTTGCTAATCAGCTATATGAACTT
genomic: CTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgag ... ctgagagcagGATAAATCTTGGAGGGTGCGCTACATGGTTGCTAATCAGCTATATGAACTT
EST: gi|125069874|gb|EL135494.1|EL135494
EST:     ATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAG                         GATAAATCTTGGAGGGTGCGCTACATGGTTGCTAATCAGCTATATGAA
genomic: ATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgag ... ctgagagcagGATAAATCTTGGAGGGTGCGCTACATGGTTGCTAATCAGCTATATGAA