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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgtcacattttcaaaccctgaatcatcataacaccattttgtcttcctacgtaaatataataactctatcaaaactctctttctggtggcagCTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATAAAGATCCCTGCATCAAGTCCCATGTGGGCAAGGCATCTCTTCATTCTTC

Basic information

species Arabidopsis thaliana
transcript AT1G27750.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G27750.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G35410.1 (Glycine max), 3'ss of exon 12
gtatgtgtcacattttcaaaccc-tgaatcatcataacaccattttgtcttcctacgtaaatataat--aactctatcaa-aactctctttctggtggc-agCTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATAAAGATCCCTGCATCAAGTCCCATGTGGGCAAGGCATCTCTTCATTCTTC
       |  || || |  |    ||||| |  ||   |   |  ||| |   | |   || | | |  |   || ||    |  || | ||||  | | || | || ||||||||| |||||||||||||||| |||||||| || || || || ||||| || ||||   |||| |||||||||   || |||||||| |
--ggaatttgcacttacgtatttatgaataagaattggaatttcatgtttgtgtcctgtaacacagtccattcctctcgttgatcctatgtctgtcgaccagTTTCAGGATTTCATATCATACTTGAAGCAGAGGGATTGTGCTGGGGTTATTAAAATCCCAGCTTCAAAATCCATATGGGCAAGGTTGCTATTCATTCTCC

upper sequence: AT1G27750.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA14G09800.1 (Glycine max), 3'ss of exon 12
-gtatgtgtcacattttcaaaccc-tgaatcatcataacaccattttgtcttcctacgtaa-atataataactctatcaa-aactctctttctggtgg-cagCTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATAAAGATCCCTGCATCAAGTCCCATGTGGGCAAGGCATCTCTTCATTCTTC
 |||  | |  || ||    |    ||| | |  ||   |   || ||| ||     |||| | |    |   || |     || || | ||||     ||| | || ||||||||| |||||||||||||||| |||||||| || || || || ||||| || ||||   |||| |||||||||   || |||||||| |
tgtaaat-ttgcacttgtgtatatatgagtgagaattggaat-ttgtgttttgtcctgtaacacagtccattccttttgttgaccctatgtctgccaatcagTTTCAGGATTTCATATCATACTTGAAGCAGAGGGATTGTGCTGGGGTTATTAAAATCCCAGCTTCAAAATCCATATGGGCAAGGTTGCTGTTCATTCTCC

upper sequence: AT1G27750.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0001g09200.t01 (Vitis vinifera), 3'ss of exon 7
--gtatgtgt-cacattttcaaaccctgaatcatca-taacaccattttgtcttccta--cgtaaatataataactctatcaaaactctctttctggtggcagCTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATAAAGATCCCTGCATCAAGTCCCATGTGGGCAAGGCATCTCTTCATTCTTC
  |||  ||  |   ||| |  | | |  || | || || ||   || |   ||   |  |||   | ||  |  |  ||  |  |     |  |  |  ||| | || ||||||||| |||||||||||||||| ||||| ||||||||||| ||||| || ||    |   | |||||||||||||  ||||| |||||||
atgtacatgcacttctttgctgagcattcatgaccagtatcaattttataaattgtaagacgttgctgta-cattttaattgatgcaaatgtattctt--cagTTTCAGGATTTCATAGCATACTTGAAGCAGAGGGATTGCGCAGGAGTAATTAAGATTCCAGCTGTGAAATCAATGTGGGCAAGGCTACTCTTTATTCTTC

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|164152706|gb|ES056768.1|ES056768
EST:     GGTTTGTCAGTTAATTCCTGCTGCTTTCAGCGATCGCAAAGGG                         CTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATA
genomic: GGTTTGTCAGTTAATTCCTGCTGCTTTCAGCGATCGCAAAGGGgtatgtgtca ... ctggtggcagCTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATA
EST: gi|164064205|gb|ES143272.1|ES143272
EST:     GTTAATTCCTGCTGCTTTCAGCGATCGCAAAGGG                         CTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATA
genomic: GTTAATTCCTGCTGCTTTCAGCGATCGCAAAGGGgtatgtgtca ... ctggtggcagCTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtcttcctacgtaaatataataactctatcaaaactctctttctggtggcagCTCCAAGATTTCATAACATACTTGAAGCAGAGAGATTGTGCAGGAGTAATAAAGATCCCTGCATCAAGTCCCATGTGGGCAAGGCATCTCTTCATTCTTC
                    taataac  putative branch site (score: 1)
                                     ctctctttct  putative PPT
              taaatataataactct  TA-rich tract