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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtagtttctattcaagtggctttgtttcagtagaccattaattgttttcactagtgtgtgtgtttgaaaggctgtaattatgagtgatactgggtcattctcatttttgtagACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCAGA

Basic information

species Arabidopsis thaliana
transcript AT3G10540.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os01g65230.1 (Oryza sativa), 3'ss of exon 2
gtaggtagtttctattcaagtgg---ctttgtttcagtagaccattaattgttttcactagtgtgtgtgtttgaaag-gctgtaatt--atgagtgatac----tgggtcattctcatttttgtagACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCAGA
||  ||   ||| |||  ||  |   |  |       |  |  ||||  |        |  | | |     | |||| | ||  |||  ||||   | ||       |    | |  | | || ||| |||||||||||||| |||||||||||||| || || ||||||||     | 
gttagtgccttccatttgagctgaaacactaacggcttcaaatattagctccaaaagattttatctccaaataaaagtgttggcattggatgaacaagacatttcttgctggttttttctgtgcagATATGGCGCTTGAGTCGTGTGAAGGTGGGGAGCTGTTTGACCAAATTGTTCGG

upper sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 2
-----------------------------gtaggtagtttctattcaagtggctttgtttcagtagaccattaattgttttcactagtgtgtgtgtttgaaaggctg--------taattatga-gtgatactgggtcattctcatttt-------tgtagACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCAGA
                               |  |  ||    |   | |  ||    |    ||     | || | |      |  |     ||||||  | | ||        | ||| ||| || ||  |    | || |  ||||       || ||||||||| ||||| || ||||||||||| |||||||| || ||||| ||||| 
gtaagtattcgtaggtgtattttacctttacacttgcttatgctctgacttactcctctctgataccttttcaactctagcttttgctcaccttgtttgccaagttggtttatatttattttgacgttattttttcccctttttcttttacatcggtgaagACATGGCACTTGAATCCTGTGAAGGTGGAGAACTTTTTGATCAAATAACCAGG

upper sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 2
-----------------------------gtaggtagtttctattcaagtggctttgtttcagtagaccattaattgttttcactagtgtgtgtgtttgaaaggctg-----taattatgagtgatactgggtcattctcatttt-------------tgtagACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCAGA
                               |  |  ||    |   | |  ||    |    ||     | || | ||     |  |      |||||  | | ||     || ||||   ||| | |   |  ||| | ||||             || ||||||||| ||||| || ||||||||||| |||||||| || ||||| ||||| 
gtaagtattcctggatgtatgttatctttacacttgcttatggtctgacttactcctctctgataccttctcaactcttccttttgctcccctcgtttgccaagttggtttatatttattt-tgacattatttttttccctttttccttttacatcggtgaagACATGGCTCTTGAATCCTGTGAAGGTGGAGAACTTTTTGATCAAATAACCAGG

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|86070402|gb|DR366159.1|DR366159
EST:     TCCCGGGATTGTGAAACTCTTCTTTACGTTTCAGGATACACAATCACTAT                         ACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCA
genomic: TCCCGGGATTGTGAAACTCTTCTTTACGTTTCAGGATACACAATCACTATgtaggtagtt ... atttttgtagACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCA
EST: gi|86070404|gb|DR366161.1|DR366161
EST:     TCCCGGGATTGTGAAACTCTTCTTTACGTTTCAGGATACACAATCACTAT                         ACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCA
genomic: TCCCGGGATTGTGAAACTCTTCTTTACGTTTCAGGATACACAATCACTATgtaggtagtt ... atttttgtagACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgtttgaaaggctgtaattatgagtgatactgggtcattctcatttttgtagACATGGCGCTTGAGTCTTGTGAAGGTGGGGAACTTTTCGACCAAATCACCAGA
                                     tcattctcattttt  CT-rich tract
               tgtaattat  TA-rich tract