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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgcagtgtttggcagtatcatgcattcaaagagtgaatccttttctccatagaactcgtgtttgtctctattgattggatatgtctgtttctttcagctcatatgacattctttttactataatgctgttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCCGTTGTGGGACAAATACATTGAGTATGAGTACATGCAGCAGGACTGGAGC

Basic information

species Arabidopsis thaliana
transcript AT1G04080.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G04080.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G35140.3 (Glycine max), 3'ss of exon 1
gtaaatgcagtgtttggcagtatcatgc-attcaaagagtgaatcctt--ttctccataga-actcgtgtttgtctctat--tgattggatatg--tctgtt------tctttcagctcatatgacattctttttactataatgct-----gttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCCGTTGTGGGACAAATACATTGAGTATGAGTACATGCAGCAGGACTGGAGC
|||||||||| ||||||  || | |    ||   | |||||| |  ||  |||||| |  | ||| ||| |  | ||||   |   ||||| ||  || ||       |  || |  |||  | ||||  |    |  |   || |     ||| |||||||||||||||||  || | ||| |||||||| |||| |||||| | |||  | ||||| ||||||||||| ||||||||||||||||||||||||  |
gtaaatgcagcgtttggatgtcttacatgatgttacgagtgatttgtttgttctccttgaacactagtgctgctgtctaccatacatggatgtgcatcagtaaatagatgcttgaaatcaagtcacatattaaccaggactgtgttcatttgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCC

upper sequence: AT1G04080.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G35140.1 (Glycine max), 3'ss of exon 6
gtaaatgcagtgtttggcagtatcatgcattcaaagagtgaatccttttctccatagaactcgtgtttgtctctattgattggatatgtctgtttctttcagctcatatgacattctttttactataatgctgttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCCGTTGTGGGACAAATACATTGAGTATGAGTACATGCAGCAGGACTGGAGC-----------------------------------
                                                                                |  |||  |   ||    |||  ||| ||   |  |       | |     |||| |||||||||||||||||  || | ||| |||||||| |||| |||||| | |||  | ||||| ||||||||||| ||||||||||||||||||||||||  |                                   
-------------------------------------------------------------------------------gtaaatagatgc-ttgaaatcaagtcacatattaaccaggactgtgttcatttgtttcaggctttttgaacgaggattagcttatgttggaacagATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCCTGCCTTGCTGTGATCTACACCAGAATATTAGAGAA

upper sequence: AT1G04080.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G35140.2 (Glycine max), 3'ss of exon 1
gtaaatgcagtgtttggcagtatcatgcattcaaagagtgaatccttttctccatagaactcgtgtttgtctctattgattggatatgtctgtttctttcagctcatatgacattctttttactataatgctgttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCCGTTGTGGGACAAATACATTGAGTATGAGTACATGCAGCAGGACTGGAGC
                                  |     | | ||  | || |    ||  |  | ||  || | | | | |||       ||    |||  ||| ||   |  |       | |     |||| |||||||||||||||||  || | ||| |||||||| |||| |||||| | |||  | ||||| ||||||||||| ||||||||||||||||||||||||  |
---------------------------------gaacactagtgctgctgtctaccatacatggatgtgcatc-agtaaatagatgc-----ttgaaatcaagtcacatattaaccaggactgtgttcatttgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCC

upper sequence: AT1G04080.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA03G32410.1 (Glycine max), 3'ss of exon 6
gtaaatgcagtgtttggcagtatcatgcattcaaagagtgaatccttttctccatagaactcgtgtttgtctctattgattggatatgtctgtttctttcagctcatatgacattctttttactataatgctgttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCCGTTGTGGGACAAATACATTGAGTATGAGTACATGCAGCAGGACTGGAGC
                                                                   ||  || | | | | |||   |     ||    | |  ||    ||    |  |  |  | |  |||| |||||||||||||||||  || | ||| |||||||| |||| |||||| | |||  | ||||| ||||||||||| |||||||| |||||||||||||||  |
------------------------------------------------------------------gtgcatc-agtaaatagatgc-ttgaaatcaagtaacatattaaccaggactgcttgttcatt--tgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTATATGCAGCAGGACTGGGCC

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|164087889|gb|ES098476.1|ES098476
EST:     GGTAGCCCTTGACTGCTCGATTTTGGCCATAGTATGCTTTTACTAGGAAG                         GCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCC
genomic: GGTAGCCCTTGACTGCTCGATTTTGGCCATAGTATGCTTTTACTAGGAAGgtaaatgcag ... gctgttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtctgtttctttcagctcatatgacattctttttactataatgctgttgcagGCTTTTTGAACGAGCTTTGGTTTACGTTGGAACTGATTTTCTTTCCTCTCCGTTGTGGGACAAATACATTGAGTATGAGTACATGCAGCAGGACTGGAGC
                            attctttttactataa  TA-rich tract