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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag

Basic information

species Arabidopsis thaliana
transcript AT4G34450.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtag---ttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
| || ||||||||||| || ||||| ||||| ||||| ||||| ||||| || || |||||||| |||||  |||| ||||| || |||||  | ||  |||| ||| | |        || ||||    |    |||     || || | |    | |  |   |  ||| ||  |    || | | |||  ||                                        
TGACCAATTTTATGTCGGACATTGCCGATGAATTCAAGATTGTTGTCGTAGAGGCCATAAGATCCTTGTGCTTGAAGTTCCCCCTAAAATATCGGTCACTgtacgtagaatagcgtatattcttatacagaaatttttaaagatccagaactagcttgtcatcagaacattgaactt----tgttgtgtttgcag----------------------------------------

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagtttta-gggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatct-ttttagcatttggcttatgattgatctatcaccttttcatttgtag
| || || ||||||||||| || ||||||||||| || ||||| || || || |||||||||||  ||||  |||| ||||| ||||||||  | || ||||| ||| |       | |||||   | |     ||     |||   | | |  ||||  |  || |  |   || ||    ||||| ||  ||                                        
TGACCAACTTTATGTCAGACATAGCTGATGAGTTTAAGATTGTTGTTGTTGAAGCAATAAGATCCCTGTGCTTGAAGTTCCCTCTGAAATATCGCTCATTgtatgtatatagaagcgtgtttgcactattcttgttaaacatcgtaaactacctttttcatctataagcattaattttcatttatctgttccag----------------------------------------

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G036034_T01 (Zea mays), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
| || || ||||||||||| || ||||||||||| || ||||| || || || |||||||||||  ||||  |||| ||||| ||||||||  | || ||||| ||| |  |  | |  |   |  |||   |  |  | |  |  ||    |  |   |   | ||  | || |   |  | ||  ||||   | ||  |||                             
TGACCAACTTTATGTCAGACATAGCTGATGAGTTTAAGATTGTTGTTGTTGAAGCAATAAGATCTCTGTGCTTGAAGTTCCCTCTGAAATATCGCTCATTgtatgtata--tagaagcatgtcttcttgcgctagtcttgttaaatatcataaactacctttttcatcta-taagcattaatttccattta---tctgttttag----------------------------

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttc-tatttt-tttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
| || ||||| ||||| |||||||||||||||||||||||||| || || || ||||||||||| |||||  ||||||||||  | ||||| |||||  ||| ||||       | |   |  |||  ||   |||   | |     || | |||||  |||||||| ||   |   |    | ||  | | |     ||| || |  |   | ||| |  ||||||       
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagta------caagtcattctataggtttctttccccccagaagttacatatttcatttgaatgttt---ttcctagatgaatggtctaaattactggtttcttttctgt-tatta--ttttcag------

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
| || ||||| ||||| |||||||||||||||||||||||||| || || || ||||||||||| |||||  |||| || ||  | |||||  ||||  |||| ||   ||    |  | |  | |||| | |       |    ||| | |    |  || || ||| | |   |   || || ||||  |    ||| || | |||   |||| |  ||||||       
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgt---gtccctgaatatagtttttg-actccccacat--gccatatgttacatcgtgcat-atttatttcctagaggaatgttttatgatgatggtttgt-attctgctatta--ttttcag------

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA04G01470.1 (Glycine max), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
| || ||||| ||||| |||||||||||||||||||||||||| || || || ||||||||||| |||||  |||| || ||  | |||||  ||||  |||| ||             |   |   | ||||||| | |||   |||     || | ||| || ||| | |   | | || || ||||  ||   ||| || | |||   |||| |  ||||||       
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtg------------tccctgaatatagtttttgactccc-catacgccttatgttgcat-atttatttcctaaaggaatgttttatgctgatggtttgt-attctgctatta--ttttcag------

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA12G04820.1 (Glycine max), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttctatttt-tttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
| || ||||| ||||| |||||||||||||||||||||||||| || || || |||||||||||  | ||  ||||||||||  | ||||| |||||  ||| |||| |  |  | |   |  |||  ||   |||   |  ||   |   |||||  |||||||| ||   |   |    | ||  | | |     ||| || |  |   | ||| |  ||||||       
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCACTATGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtatatgtcaatgtcattctataggtttctttcccccagaagttacatatttcatttgaatgttt---ttcctagatgaatggtctaaattactggtttcttttctgt-tatta--ttttcag------

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaa-----gttttagggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
| || ||||| |||||||||||||||||||| ||||||||||| || ||||| || || ||||| |||||  |||| || ||  |||| || ||| |||||||||| |      ||||| |   |  | |||   |  |||||  |  |   ||     |||||| |||||      |   | |   || |||    ||| ||   || || | | |  |   |  ||  |||  ||
TTACAAATTTCATGTCAGATATTGCTGATGAATTCAAAATTGTTGTAGTGGAAGCCATCAGATCATTGTGCTTGAAGTTTCCTTTGAAGTATAGAGCCTTgtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatga------acagtgtaaaatgtttccgtcatgtgaaata-gaataaccctttttcccttgcttttcag

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S41_154V6.1 (Physcomitrella patens), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttaggg----tttgttattt----gtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggctta--tgattgatc-tatcaccttttcatttgtag------------------------------
| || ||||| |||||||| || |||||||||||||| |||||||| ||||| || ||  | || |||||| | || ||||| |  |||||  | || |||| ||     | ||        ||| ||  ||     ||  ||  |  | ||  |  | |  | | |        | || ||| ||     |    | || ||    |||   ||||||||  ||       ||   || | |                              
TCACGAATTTCATGTCAGACATAGCTGATGAGTTCAAGATTGTGGTTGTGGAGGCCATCCGCTCTTTGTGTCTCAAGTTCCCTCAAAAATATCGCTCATTgtgagctccatgttgatacacctttatttctttacaatatcttctgcatggactacatgttatatgtcacggctcttaaaatgctagttgcttaagtcagaataatacttgcttgattgatgatactggtacttacgttctggcatgacgagcgtcctgctcctttttttcag

upper sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S276_96V6.1 (Physcomitrella patens), 5'ss of exon 9
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagc-atttggcttatgattgatctatcaccttttcatttgtag
| || || || ||||| ||||||||||||||||||||||||||||| ||||| || ||  | ||  | ||| | || ||||| |  || ||  |  | |||| |||    |   |    |    |  | ||    |  | | ||  || |  |  | ||        | ||||| || | | || || || |  || |  | |  | ||                        
TCACGAACTTCATGTCCGATATTGCTGATGAGTTCAAAATTGTGGTGGTGGAAGCCATCCGCTCTCTTTGTCTCAAGTTCCCTCAAAAGTATCGCGCATTgtgagtt---tcgcaaaaatataaacctataaacctattgt-gaatatataaacctatt-------gtgaatatattgtagaatgttctttgtgatatttccttcggttcc----------------------

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|125126019|gb|EL171400.1|EL171400
EST:     TAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTT                         GATGACCTTCTTAAGCAACATTCTTAGGGAAG
genomic: TAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaag ... tcatttgtagGATGACCTTCTTAAGCAACATTCTTAGGGAAG
EST: gi|164122156|gb|EL991234.1|EL991234
EST:     GAAATACAGATCCTT                         GATGACCTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTATAA
genomic: GAAATACAGATCCTTgtaagtaaag ... tcatttgtagGATGACCTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTATAA
EST: gi|125034297|gb|EL106566.1|EL106566
EST:     CGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTT                         GATGACCTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTATAA
genomic: CGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaag ... tcatttgtagGATGACCTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTATAA
EST: gi|125030339|gb|EL102608.1|EL102608
EST:     AAATTCCCACTGAAATACAGATCCTT                         GATGACCTTCTTAAGCAACATTCTTAGGGAAGGAGGTGGATTTGAGTATAA
genomic: AAATTCCCACTGAAATACAGATCCTTgtaagtaaag ... tcatttgtagGATGACCTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTATAA