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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgacctttttttgtatgatttattgtttacctctattggtcgtttataattcttactggagatcttgtcttggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAGGTGATTATGAAAGCGTGTAAGCCTGCACTCGAGTCTAATTACATCACGA

Basic information

species Arabidopsis thaliana
transcript AT2G25910.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G25910.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA17G34990.1 (Glycine max), 3'ss of exon 2
gtgtgacctttttttgtatgatttattgtttacctctattggtcgtttata--------attcttactggagatctt-------gtcttggcttg--gcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAGGTGATTATGAAAGCGTGTAAGCCTGCACTCGAGTCTAATTACATCACGA
 |||||  ||||||| |||  |||  ||  ||       ||||  ||||          ||||||     |||  ||       || | |  ||   |||| |||| ||  |  ||||  | |||||||||||||  || ||||| ||||||| | |||| | |||||||||||||||||| ||||||||||||||||| |
ttgtgattttttttt-tatatttttgtgagtagactatatggtgatttacttgtattgcattcttggcatagaatttcaatagagtttcgtgttactgcagCTTGCGTTTCCGGATGCTGTCTACTTGGTTGATGCGATTGAAGGGGGAGAGGAGCTTATCATAGCGTGTAAGCCTGCACTTGAGTCTAATTACATCACAA

upper sequence: AT2G25910.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA14G10520.1 (Glycine max), 3'ss of exon 2
-----------gtgtgaccttttttt--gtatgatttattgt---ttacctctattggtcgtttataattcttactggagatcttgtcttggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAGGTGATTATGAAAGCGTGTAAGCCTGCACTCGAGTCTAATTACATCACGA
            | | |  ||||| |  |||   | ||| ||   |||| | |||||     ||   ||      |  |     | |  ||  |  |||| |||||||  |  ||||  | |||||||||||||  || ||||| ||||||| | |||| | |||||||||||||||||| ||||||||||||||||| |
tttagggatttttttaatgtttttgtgagtagagtatatggtgatttacttgtattgcattcttggcatagaatttcaattgagttttgtgtttctgcagCTTGCATTTCCGGATGCTGTGTACTTGGTTGATGCGATTGAAGGGGGAGAGGAGCTTATCATAGCGTGTAAGCCTGCACTTGAGTCTAATTACATCACAA

upper sequence: AT2G25910.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv04s0008g00650.t01 (Vitis vinifera), 3'ss of exon 2
------------------gtgtg-acctttttttgtatgatttattgtttacctctattggtcgtttataattcttactggagatcttgtcttggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAGGTGATTATGAAAGCGTGTAAGCCTGCACTCGAGTCTAATTACATCACGA
                   |||  | |   ||   ||| |  |||| | |  |   |    |    | | ||  |||    |||| ||    |   |||||||||||| ||  |  |||| || ||  |||||||||  ||  | || |||||| || |||||||||| |||||||||||||| || |||| ||||||||| |
gttcaaaatctttgtcaaatgtttatccagttccttattacctattctgtgtcatgagattttcactttgataattatgaaagatttttatct---ttggcagATTGCTTTTCCAGATGCTATTTATCTGGTTGATGCTATTCAGGGGGGAGAGATGCTTATGAAAGCCTGTAAGCCTGCACTTGAATCTAGTTACATCACAA

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|86035177|gb|DR330930.1|DR330930
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035184|gb|DR330937.1|DR330937
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035180|gb|DR330933.1|DR330933
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035183|gb|DR330936.1|DR330936
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035178|gb|DR330931.1|DR330931
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035173|gb|DR330926.1|DR330926
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035181|gb|DR330934.1|DR330934
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035176|gb|DR330929.1|DR330929
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035186|gb|DR330939.1|DR330939
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGAGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035185|gb|DR330938.1|DR330938
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035174|gb|DR330927.1|DR330927
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
EST: gi|86035182|gb|DR330935.1|DR330935
EST:     ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAG                         ATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG
genomic: ACTGTGAGGGTGTTGACCTCTGCCGACATGGGAAACTTTGTATCATGCAGgtgtgacctt ... ggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacctctattggtcgtttataattcttactggagatcttgtcttggcttggcagATTGCATTCTCTAATGCAATATACTTGGTTGATGTCATCGAAGGTGGAGAGGTGATTATGAAAGCGTGTAAGCCTGCACTCGAGTCTAATTACATCACGA
                       ttcttac  putative branch site (score: 2)
                tttataattcttact  TA-rich tract