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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGATGGACGGCGGAACACGCCGTTAACGCTGCTTTGGGACAATTCGACTATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgtctttcatctctcttgtctcaatactcatttttactaaaccaaaccaaacgggaatgaattcggtttacaatttaaatttccttaattgtt...

Basic information

species Arabidopsis thaliana
transcript AT4G21210.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G21210.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA20G27860.1 (Glycine max), 5'ss of exon 1
TGGATGGACGGCGGAACACGCCGTTAACGCTGCTTTGGGACAATTCGACTATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgtctttcatctctcttgtctcaatactcatttttactaaaccaaaccaaacgggaatgaattcggtttacaatttaaatttccttaattgtt
 || ||||| || ||||||  ||||||||| |||||||| || ||||| || ||||||||||||||||| || ||||| | ||| ||| | || || ||||||      |     |  |    |     || |      | |  |    | | |        ||  | |   ||| |  || | ||  |      ||  |
CGGCTGGACCGCCGAACACTGCGTTAACGCCGCTTTGGGTCAGTTCGATTACTGCTTGGTCGACCGTGGCTGCCCCGTCAGTACCCATTTGTTTTCTGGGgtaagcaaatacaaaacattatataaaaaaaaaaaagcgtcttttttttcgatctttgattaaaatactaatgttaatcatctgaaagtatgagtttaat

upper sequence: AT4G21210.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA10G39830.1 (Glycine max), 5'ss of exon 1
TGGATGGACGGCGGAACACGCCGTTAACGCTGCTTTGGGACAATTCGACTATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgtctttcat-ctctcttgtctcaatactcatttttactaaaccaaaccaaacgggaatg--aattcggtttacaatttaaatttccttaattgtt
 || ||||| || ||||||  ||||||||| |||||||| || ||||| || ||||||||||||||||| || ||||| | ||| ||| | || || ||||||      |     |   | | |||| |||  |    ||||| ||       |  |||     ||   ||||    | |   |  || | |   |    |  
CGGCTGGACCGCCGAACACTGCGTTAACGCCGCTTTGGGTCAGTTCGATTACTGCTTGGTCGACCGTGGCTGCCCCGTCAGTACCCATTTGTTTTCTGGGgtaagcaaatagaaaacattgtattgtatcagaatgtcttttttctttctttgattaaattaccatactaattttaatcatg-tcaaagtatgagtttcag--

upper sequence: AT4G21210.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv10s0116g00390.t01 (Vitis vinifera), 5'ss of exon 1
TGGATGGACGGCGGAACACGCCGTTAACGCTGCTTTGGGACAATTCGACTATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgtctttcatctctcttgtctcaatactcatttttactaaaccaaaccaaacgggaatgaattcggtttacaatttaaatttccttaattgtt
||||||||||| ||| || ||||||||||| || ||||| || |||||  | ||||||||||| ||||| |||||||| ||||| ||||| ||||| |||||      ||||||    | ||||   |   || |     |||  |    |          |||     |   | | ||  ||| ||  | ||    |  
TGGATGGACGGTGGAGCATGCCGTTAACGCCGCGTTGGGGCAGTTCGAACACTGCTTGGTCGATCGTGGCTGTCCCGTAAATACGCATCTGTTCTCCGGGgtgaatatgtcttttcattatcttacttagttattttagcttataattttatgtagttgtagaaatttctgaatgtccatcttacatcacgtttggagag

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|124986152|gb|EL058691.1|EL058691
EST:     TGGTTGTCCCGTTAATACACATCTCTTCTCTAGGG                         ATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGA
genomic: TGGTTGTCCCGTTAATACACATCTCTTCTC-AGGGgtattatcgt ... ttttttgaagATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGA
EST: gi|86070549|gb|DR366306.1|DR366306
EST:     ATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGG                         ATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
genomic: ATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgt ... ttttttgaagATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
EST: gi|124963814|gb|EL038124.1|EL038124
EST:     GGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGG                         ATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
genomic: GGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgt ... ttttttgaagATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
EST: gi|47829804|gb|CK119488.1|CK119488
EST:     ATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGG                         ATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
genomic: ATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgt ... ttttttgaagATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
EST: gi|116424173|gb|EG466765.1|EG466765
EST:     ATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGG                         ATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
genomic: ATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgt ... ttttttgaagATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
EST: gi|47830494|gb|CK120178.1|CK120178
EST:     ATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGG                         ATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA
genomic: ATTGCTTGGTCGACCGTGGTTGTCCCGTTAATACACATCTCTTCTCAGGGgtattatcgt ... ttttttgaagATTGAAGATGGGGAGAAGTTAATGGAGATCATAAAGCAAGCGGCAAGAGAA