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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCATTTGGGACATTTTCTTCTCGCAAGGTTGTTGCTTGATGACTTGAAGAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtctagaatctgtataaccctacattgcaagatagagaatgattttgatcattgttatgtttgtttggtttag

Basic information

species Arabidopsis thaliana
transcript AT4G27440.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G27440.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G35050.2 (Glycine max), 5'ss of exon 3
AACCATTTGGGACATTTTCTTCTCGCAAGGTTGTTGCTTGATGACTTGAAGAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtc---tagaatctgtat----aaccctacattgcaagatagagaatgattttgatcattgttatgtttgtttg-gtttag---
|| ||| |||| ||||| || ||| |  |  |||||||||| |||||| | ||||| |||||||||||||||||  | |||||||| || || || || ||| | ||    ||| || | |||    |   | |  |   |  | |      | ||    |  || |  || |||| ||  || |    
AATCATCTGGGGCATTTCCTCCTCTCGCGCCTGTTGCTTGAGGACTTGGAAAAATCCGATTACCCTTCAAAGCGCTTGATCATCGTTGGTTCAATAACAGgtctagttcattagcatgtttattgtgagttccagttcttatcacaccattaggttgcatttcttatgctgattgtgtgtattcaacag

upper sequence: AT4G27440.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G23140.1 (Glycine max), 5'ss of exon 1
AACCATTTGGGACATTTTCTTCTCGCAAGGTTGTTGCTTGATGACTTGAAGAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtc---tagaatctgtataaccctacatt---gcaagatagagaatgat----tttgatcattg--ttatgtttgtttggtttag--------------------------------
||||||||||| ||||| || ||  || |  | |||||||| |||||||| |||||||| |||||||||||| |  | ||||| || || ||||| || |||||  |    ||| || | ||| |    | ||    ||||   |  |  ||||    |    ||||||   |||| ||  |   | ||                                 
AACCATTTGGGGCATTTCCTCCTTTCACGCCTTTTGCTTGAGGACTTGAACAAATCTGACTACCCTTCAAAGTGGTTGATCATTGTTGGCTCCATCACAGgtataattcattaggatgtttattaagagaaatgctagcaacgcattgtctgatgcattcatttcattgcactatgattcatatttctaaacagtgaatacgaaaaagagtgttttatggag

upper sequence: AT4G27440.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv12s0059g00270.t01 (Vitis vinifera), 5'ss of exon 3
AACCATTTGGGACATTTTCTTCTCGCAAGGTTGTTGCTTGATGACTTGAAGAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtatt-gtctagaatctgtataaccctacattgcaagatagagaatgattttgatcattgttatgtttgtttggtttag---------------------
|||||| | ||||| || |||||| |||| ||| ||||||||||| ||||| || | |||||||| |||||||| |||||||| || || |||||||| |||| | ||  |   || | |    || |   ||  | ||    |||| ||   |  |     |   |       || ||                     
AACCATCTTGGACACTTCCTTCTCTCAAGATTGCTGCTTGATGACCTGAAGCAAACAGATTACCCATCAAAGCGGCTCATCATTGTTGGCTCCATTACAGgtactagttcaacttcagaacctgccaaggatgtgaaatttttaatgtttcacaatacaaccacagtgaaaaaattgagacttaaaacagtttcaagaat

upper sequence: AT4G27440.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv19s0014g03160.t01 (Vitis vinifera), 5'ss of exon 3
AACCATTTGGGACATTTTCTTCTCGCAAGGTTGTTGCTTGATGACTTGAAGAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtctagaatctgtataaccctacat--tgcaagatagag-----aatgattttgatcattgtt---atgtttgtttggtttag-----------------------------------------
|||||| | || || || ||||||||  ||||| |||||||||| |||||| ||||||||||||| |||||||||||||| ||||| || || ||||| |||| ||     |||| | | ||   |   |  || || |||||      | ||| ||| || ||   |   ||     ||||   ||                                          
AACCATCTTGGGCACTTCCTTCTCGCCCGGTTGCTGCTTGATGATTTGAAGCAATCTGATTACCCATCAAAGCGTCTCATTATCGTTGGTTCAATTACAGgtactgcaattaatcaggacaaatatgattcatgtaaaatagaagtaccactgaatttcatgatgagttcaatacaaatttgtcatataaatgtactaagtatgctattccttctataaaatgaatcag

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|116443986|gb|EG486578.1|EG486578
EST:     TTCTTCATCATCTTTCAAGGACTCGAGTCTTTTTGGTGCCTCCATTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG
genomic: TTCTTCATCATCTTTCAAGGACTCGAGTCTTTTTGGTGCCTCCATTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG
EST: gi|124832077|gb|EH916516.1|EH916516
EST:     GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGT
genomic: GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGT
EST: gi|163967998|gb|ES159343.1|ES159343
EST:     TCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: TCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|125200768|gb|EL215722.1|EL215722
EST:     TTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: TTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|164132971|gb|EL975709.1|EL975709
EST:     AAATCTGATTACCCTTNAAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: AAATCTGATTACCCTT-CAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|125246297|gb|EL260382.1|EL260382
EST:     CGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: CGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|125099875|gb|EL155525.1|EL155525
EST:     CCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: CCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|116440576|gb|EG483168.1|EG483168
EST:     TTCTTCATCATCTTTCAAGGACTCGAGTCTTTTTGGTGCCTCCATTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG
genomic: TTCTTCATCATCTTTCAAGGACTCGAGTCTTTTTGGTGCCTCCATTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG
EST: gi|163968154|gb|EL979108.1|EL979108
EST:     TCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: TCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|124820449|gb|EH905315.1|EH905315
EST:     GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAAT
genomic: GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAAT
EST: gi|124846382|gb|EH930819.1|EH930819
EST:     TCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: TCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|164183400|gb|ES120762.1|ES120762
EST:     TCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: TCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|124825962|gb|EH910828.1|EH910828
EST:     CCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: CCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|125026886|gb|EL099155.1|EL099155
EST:     GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAA
genomic: GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAA
EST: gi|116416037|gb|EG458629.1|EG458629
EST:     GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|125010684|gb|EL082953.1|EL082953
EST:     GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATA
genomic: GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATA
EST: gi|125060883|gb|EL129560.1|EL129560
EST:     CCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: CCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|116440655|gb|EG483247.1|EG483247
EST:     CTTTTTGGTGCCTCCATTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG
genomic: CTTTTTGGTGCCTCCATTACCGACCAAATCAAATCCGAACATGGATCTTCCTCGTTAAGATTCAAG
EST: gi|86058735|gb|DR354492.1|DR354492
EST:     GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|124839274|gb|EH923713.1|EH923713
EST:     AATCTGATTTACCCTTCAAAGCGTCTCATACATCGTCGGATCCATTACCG                         GGAACACGAATA
genomic: AATCTGATT-ACCCTTCAAAGCGTCTCAT-CATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATA
EST: gi|124836571|gb|EH921010.1|EH921010
EST:     GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGG
genomic: GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGG
EST: gi|124807191|gb|EH893606.1|EH893606
EST:     CCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
genomic: CCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAATCTCGGTG
EST: gi|124937288|gb|EL014075.1|EL014075
EST:     GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCG                         GGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAA
genomic: GAAATCTGATTACCCTTCAAAGCGTCTCATCATCGTCGGATCCATTACCGgtattgtcta ... tttggtttagGGAACACGAATACATTGGCGGGTAATGTACCACCGAAGGCGAA