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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatttctgggttcattcgcttactatcaactgtattcatgcgggtataatctgagatttcacctgaatctatcactgatttgcagGGTCATGTAAACACGATTGAATTCAACTACATGGAGTATGCAAGGCAGAGGTTTCAGCAGTACTGGCTCAGAAAGCCCCTGCTTTTGGGTTCCTCGAAAG

Basic information

species Vitis vinifera
transcript Vv18s0157g00190.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0157g00190.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os05g45880.1 (Oryza sativa), 3'ss of exon 6
gtatgcatttctgggttcattcgcttactatcaactgtattcatgcgggtataatctgagatttcacctgaatctatcactgatttgcagGGTCATGTAAACACGATTGAATTCAACTACATGGAGTATGCAAGGCAGAGGTTTCAGCAGTACTGGCTCAGAAAGCCCCTGCTTTTGGGTTCCTCGAAAG
|| ||  |||||       ||| ||| |   ||||||| |      |   |  || | |   | ||     || ||   ||  ||||||||  ||||| |||   ||||| ||| ||||||||| |||||| |||||||||||  |||||||||||||||  |||||     |  |    |    |   |
gtttg-gtttctcctcagtttcacttgcctccaactgtgtaagactgaacaccatgtaaacatcca-----atttacatct--tttgcagGAGCATGTCAACGATATTGACTTCGACTACATGGGGTATGCGAGGCAGAGGTTCGAGCAGTACTGGCTCAAGAAGCCTGCAATCCTAACATGTCAGGTCG

upper sequence: Vv18s0157g00190.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G31030.1 (Glycine max), 3'ss of exon 7
---gtatgcatttctgggttcattcgcttactatcaactgtattcatgcgggtataatctgagatttcacctgaatctat-cactgatttgcagGGTCATGTAAACACGATTGAATTCAACTACATGGAGTATGCAAGGCAGAGGTTTCAGCAGTACTGGCTCAGAAAGCCCCTGCTTTTGGGTTCCTCGAAAG
     ||  ||||     |  |||   ||| | |||| |    |  ||  ||||||  || | |||      ||   ||| ||      ||||| || |||| ||||  ||||| ||  |||| | ||||||||||||||||||||||||||| |||||| | || |||||     | ||||  ||  | |   
gtaagatttatttacttatctatttatttattttcaattcc-ctggtg-aggtata--ctaatatt------gatgttatgcatgtgcatgcagAGTTATGTGAACAAAATTGATTTTGACTATAAGGAGTATGCAAGGCAGAGGTTTCAGCAATACTGGATAAGGAAGCCTACTTTATTGGACTCACCAAGCA

upper sequence: Vv18s0157g00190.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G36570.1 (Glycine max), 3'ss of exon 7
gtatgcatttctgggttcattcgcttactatcaactgtattcatgcgggtataatctgagatttcacctgaatctat-cactgatttgcagGGTCATGTAAACACGATTGAATTCAACTACATGGAGTATGCAAGGCAGAGGTTTCAGCAGTACTGGCTCAGAAAGCCCCTGCTTTTGGGTTCCTCGAAAG
             |||| |||   ||| | || | |    |  |     || |   | || | |      | | ||| ||   |  ||||| || |||| ||||  ||||| ||  |||| | |||||||| |||||||||||||||||| |||||| | || |||||     | ||||  ||  | |   
---------gtaaggtttatttatttattttccaattccctggttatacta-agcataaggtatactaatattgtatgcatgtacatgcagAGTTATGTGAACAAAATTGACTTTGACTATAAGGAGTATGGAAGGCAGAGGTTTCAGCAATACTGGATAAGGAAGCCTACTTTATTGGACTCACCAAGCA

upper sequence: Vv18s0157g00190.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G71697.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgcatt-tctgggttcattcgcttactat---caactgtattcatgcgggtataat-ctgagatt--------tcacctgaatctatcactgatttgcagGGTCATGTAAACACGATTGAATTCAACTACATGGAGTATGCAAGGCAGAGGTTTCAGCAGTACTGGCTCAGAAAGCCCCTGCTTTTGGGTTCCTCGAAAG
||  || || |||   ||  ||  | | || |   |||     | | |  |  | | ||  ||| | |        || |  |  ||| | | ||    |||||| ||||| |||| |||||| ||| | |||||||| |||||||||||||| ||| | ||||||||||| ||||||||  ||||| | |     |  |   
gttagctttctctctctttctttcccttctttgtccaaaaaactccttaagactctgatgttgaaactggtagtaatctctagtgtctgttaatgcaaagcagGGACATGTGAACAAGATTGAGTTCGATTACATGGAATATGCAAGGCAGAGATTTGAACAGTACTGGCTTAGAAAGCCTTTGCTTCTTGAAGGATGAAGCA

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|22011195|gb|BQ796229.1|BQ796229
EST:     AGTACACTCTTGCAAATCATCTATTTTGGGGCATATGGGGAATAATTTCG                         GGTCATGTAAACACGATTGAATTCAACTACATGGAGTATGCAAGGCAGAGG
genomic: AGTACACTCTTGCAAATCATCTATTTTGGGGCATATGGGGAATAATTTCGgtatgcattt ... tgatttgcagGGTCATGTAAACACGATTGAATTCAACTACATGGAGTATGCAAGGCAGAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtattcatgcgggtataatctgagatttcacctgaatctatcactgatttgcagGGTCATGTAAACACGATTGAATTCAACTACATGGAGTATGCAAGGCAGAGGTTTCAGCAGTACTGGCTCAGAAAGCCCCTGCTTTTGGGTTCCTCGAAAG
                                          cactgat  putative branch site (score: 3)
              tataatct  TA-rich tract