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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccaagtaatttctggactgtttcataagttccgtttgatgaagatatgctggtatagaaatttatggttttccgtggttatatccatctcaatttgcagttgtaggagctaatctatatgtgtgtgtgaatgtgttctttgtgtttatgtgagagtgatataaaatttgggttgtgttgcagCTGTGGAATGAGACTTATGTTCATTTTAACAAAGTTGATCCAAAACAAACTTATTACTTGTCAATGGAGTATCTCCAAGGTCGTGCTTTGACCAATGCCA

Basic information

species Arabidopsis thaliana
transcript AT3G46970.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 2
gtaaccaagtaatttctggactgtttcataagttccgtttgatgaagatatgctggtatagaaatttatggttttccgtggttatatccatctcaatttgcagttgtaggagctaatctatatgtgtgtgtgaatgtgttctttgtgtttatgtgagagtgatataaaatttgggttgt----gttgcagCTGTGGAATGAGACTTATGTTCATTTTAACAAAGTTGATCCAAAACAAACTTATTACTTGTCAATGGAGTATCTCCAAGGTCGTGCTTTGACCAATGCCA
                                                                                      ||| ||   | |    ||| || |  |||   |    || |   |||||   || ||||  |     | |   || | |   |  | | |  |     || ||||  |||||||| || ||  |||||||| ||||||||||||| || |||||||| ||||| || |||||||  || |||||||| ||||||||||||||||
--------------------------------------------------------------------------------------tccctcatcactactggtt-taagtcctaggttg---gtatacttgaattgtttgtttgcatgggactaatgctgttgttgtacattgatgataaccatttcagCAATGGAATGAAACGTACCTTCATTTTCACAAAGTTGATCCCAAGCAAACTTACTACTTATCGATGGAGTTCCTTCAAGGTCGAGCTTTGACCAATGCCA

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G07480.1 (Glycine max), 3'ss of exon 1
gtaaccaagtaatttctggactgtttcataagttccgtttgatgaagatatgctggtatagaaatttatggttttccgtggttatatccatctcaatttgcagttgtaggagctaatctatatgtgtgtgtgaatgtgttctttgtgtttatgtgagagtgatataaaatttgggttgtgttgcagCTGTGGAATGAGACTTATGTTCATTTTAACAAAGTTGATCCAAAACAAACTTATTACTTGTCAATGGAGTATCTCCAAGGTCGTGCTTTGACCAATGCCA
                                                                              || |   |||  |     |||  |||   |||   |  | ||  ||  |   ||  ||| | | | |   | |||     ||  || |    | |  |    || ||||  |||||||| || ||  |||||||| ||||||||||||| || |||||||| ||||| || |||||||  || |||||||| ||||||||||||||| 
------------------------------------------------------------------------------tgttctcatcactactggttta-agtccaagg--ttggtatacttgaat---tgtttgtttgcgtaggactaatgctgttgttgtacattgat-gattaccctttcaGCAATGGAATGAAACCTACCTTCATTTTCACAAAGTTGATCCCAAGCAAACTTACTACTTATCGATGGAGTTCCTTCAAGGTCGAGCTTTGACCAATGCC-

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 1
gtaaccaagtaatttctggactgtttcataagttccgtttgatgaagatatgctggtatagaaatttatggttttccgtggttatatccatctcaatttgcagttgtaggagctaatctatatgtgtgtgtgaatgtgttctttgtgtttatgtgagagtgatataaaatttgggttgtgttgcagCTGTGGAATGAGACTTATGTTCATTTTAACAAAGTTGATCCAAAACAAACTTATTACTTGTCAATGGAGTATCTCCAAGGTCGTGCTTTGACCAATGCCA
                                                                          || | | ||||    |  | |  |||   ||       || ||  | |      ||    ||  ||  |  ||  | ||  |  ||| |          | |    |||||||  |||||||| || |||||||| | | ||||   ||||||||| ||||| || ||||| || ||||||||||| ||||| ||||| ||||| ||||| |
-----------------------------------------------------------------------agctctgagattatggataaattaggttgt--tttctctttcttattcaca---aaatgcagctggattaatgatgcctctgctaatgtgtt----------gatcactttgcagCAATGGAATGATACATATGTTCACTATCACAAGACTGATCCAAAGCAAACATACTACTTATCCATGGAGTATCTTCAAGGGCGTGCCTTGACAAATGCAA

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|164003540|gb|EL998954.1|EL998954
EST:     AGCAAGCTCTCTACGCTACCGCAGAGAGTCTTCGCGATCGTCTCATTCAG                         CTGTGGAATGAGACTTA
genomic: AGCAAGCTCTCTACGCTACCGCAGAGAGTCTTCGCGATCGTCTCATTCAGgtaaccaagt ... tgtgttgcagCTGTGGAATGAGACTTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgtgttctttgtgtttatgtgagagtgatataaaatttgggttgtgttgcagCTGTGGAATGAGACTTATGTTCATTTTAACAAAGTTGATCCAAAACAAACTTATTACTTGTCAATGGAGTATCTCCAAGGTCGTGCTTTGACCAATGCCA
                          agtgatataaaattt  TA-rich tract