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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttatttcgtgtccttatagtttgacaaaaccctttcctttgaatcccccctttttagagagtgaatacaggacactgttttatttggtgcagtgcttaaatactaagcccaaaacaatattcagGTTGTTGCAGAAACAAGAAGCTCAGAAGCTTTTGTGGCCCTTTGCCTTCTCACAGTTGCTGGGACTTCACTTGTGACTCAATGGCTTGGTTTCAGCGATA

Basic information

species Arabidopsis thaliana
transcript AT4G04850.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA07G30360.2 (Glycine max), 3'ss of exon 10
gtaacttatttcgtgtccttatagtttgacaaaaccctttcctttgaatcccccctttttagagagtgaatacaggacactgttttatttggtgcagtgcttaaatactaagcccaaaacaatattcagGTTGTTGCAGAAACAAGAAGCTCAGAAGCTTTTGTGGCCCTTTGCCTTCTCACAGTTGCTGGGACTTCACTTGTGACTCAATGGCTTGGTTTCAGCGATA
                       || ||  |  ||   || |    ||        |   | | | | ||    |  ||   |  | |||| |   ||||| |   | |||          | ||||||||||||||||| ||||| |||||||| |||||||| || |||||| | || || ||||| ||||||||||| || || ||     | || || || || |
-----------------------gtctg-tatcacatatttcaagaaagatttttatccaaaaaaataaaatgtgtccaaactcatttttgatat-gtgct-aggcagtaaaatgttggtcaaattcagGTTGTTGCAGATACAAGGAGCTCAGAGGCTTTTGTTGCTCTTTGCTTGCTGACTGTTGCAGGGACTTCACTAGTCACACAGAATTTGGGATTTAGTGACA

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G06890.1 (Glycine max), 3'ss of exon 9
gtaacttatttcgtgtccttatagtttg-acaaaaccctttcctttgaatcccccctttttagagagtgaatacaggacactgttttatttggtgcagtgcttaaatactaagcccaaaacaatattcagGTTGTTGCAGAAACAAGAAGCTCAGAAGCTTTTGTGGCCCTTTGCCTTCTCACAGTTGCTGGGACTTCACTTGTGACTCAATGGCTTGGTTTCAGCGATA
                       || || |  | |    || |    ||        |   | | | | ||    |  ||   |  | |||| |   ||||| |   | |||          | ||||||||||||||||| ||||| ||||| || |||||||| || |||||| | || || ||||||||||||||||| || || ||     | || || || || |
-----------------------gtctgtatcacatatatttcaagaaagatttttatccaaaaaaataaaatgtgtccaaactcatttttgatat-gtgct-aggcagtaaaatgttggtcaaattcagGTTGTTGCAGATACAAGGAGCTCTGAGGCTTTTGTTGCTCTTTGCTTGCTGACTGTTGCTGGGACTTCACTAGTCACACAGAATTTGGGATTTAGTGACA

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 9
gtaacttatttcgtgtccttatagtttgacaaaaccctttcctttgaatcccccctttttagagagtgaatacaggacac-tgttttatttggtgcagtgcttaaatactaagcccaaaacaatattcagGTTGTTGCAGAAACAAGAAGCTCAGAAGCTTTTGTGGCCCTTTGCCTTCTCACAGTTGCTGGGACTTCACTTGTGACTCAATGGCTTGGTTTCAGCGATA
                                          | || ||| |   |||  |   |  ||   |      | |||||||  |  |||||   | || ||           |  |||| ||||||||||||||| |||| || || ||||||||||| || |||||| | || || |||||||||||||||||||| || ||   | | || ||||| || |
-----------------------------------------gtatgcatcacttttttgaaccaaacgagctccaactgcatgttttacatcctgcagaaataaattaaggttttgttgatcatatccagGTTGTTGCAGAAGCAAGGAGTTCTGAAGCTTTTGTTGCTCTTTGCTTACTGACGGTTGCTGGGACTTCACTTGTTACCCAGAAGTTGGGCTTCAGTGACA

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|124992621|gb|EL064890.1|EL064890
EST:     TGGGCATCCTCTCTCTTGGAGGAAAGTTCTTTCTCC-TAGAATTTTCGAG                         GTTGTTGCAGAAACAAGAAG
genomic: TGGGCATCCTCTCTCTTGGAGGAAAGTTCTTTCTCCGTAGAATTTTCGAGgtaacttatt ... caatattcagGTTGTTGCAGAAACAAGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggacactgttttatttggtgcagtgcttaaatactaagcccaaaacaatattcagGTTGTTGCAGAAACAAGAAGCTCAGAAGCTTTTGTGGCCCTTTGCCTTCTCACAGTTGCTGGGACTTCACTTGTGACTCAATGGCTTGGTTTCAGCGATA
                          ttaaatactaa  TA-rich tract