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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcatattaaatacgaatttcaatgactatccaaagtggtgacacacccacttatacttctttcttttgtttttgtgcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAG

Basic information

species Vitis vinifera
transcript Vv18s0001g11700.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 12
--------------------------------------------gtcatat-taaatacgaatttcaatgactatccaaagtggtgacacacccacttatacttctttcttttgtttttgtgcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAG
                                              |  || || |||   || |  ||   |||  |  | | | |         ||   |   |   | |  ||  | |  | || |||| ||||||||||||||||||||||||| |||||||||| ||||| || || || ||||||||||||||  | |||
gtttaattatggatgatttacaatttctgcttcgagttcagttttgcgcatatatatatatatatatatatatatatattgagttaatttctttgtttcctcccttaattatctttcctctaaacttgcagATTCTTGATAAGAATTGCTTGGGTCCACTGAGAAAAGCTTATTGCAGTTCTCTAAACTTGCTTCTTCGCAGGGAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA09G18840.1 (Glycine max), 3'ss of exon 12
-------------gtcatattaaatacgaatttcaatgactat-ccaaagtggtgacacaccc-acttatacttctttcttttgtttttgtgcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAG
                  ||||| |  |  |||  ||   |||         ||||    |     || ||   ||   || | ||  || ||| || ||||||||||| |||||||| ||||||||| |||||||||| ||||| || || || ||||||||||||||  | |||
agtccttactattcctgcattaattttgt-tttggatacatatatttgttcagtgattttctttgtttttatacctaaattatcttcctgggcacttgcagAGTCTTGACAAGAATTGTTTGGGTCCACTGAGAAAAGCTTATTGCAGTTCTCTGAACTTGCTTCTTCGCAGGGAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA14G08520.1 (Glycine max), 3'ss of exon 5
------------gtcatattaaatacgaatttcaatgactat-ccaaagtggtgacacaccc-acttatacttctttcttttgtttttgtgcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAG-------------------------
              | |  | |||     |||  ||   |||         ||||    |     || ||   ||   || | ||  || ||| || ||||||||||| |||||||| ||||||||| |||||||||| ||||| || || || ||||||||||||||  | |||                         
gtcccttactattccttcattaattttgttttggatacatatatttcttcagtgattttctttgtttttatacctaaattatcttcctgggcacttgcagAGTCTTGACAAGAATTGTTTGGGTCCACTGAGAAAAGCTTATTGCAGTTCTCTGAACTTGCTTCTTCGCAGGGAGGTCTGTTGCACTTCATGTTGGTTTT

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 12
gtcatattaaatacgaatttcaatgactatccaaagt-------ggtgacacacccacttatacttctttc---------ttttgtttttgtgcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAG
  || || ||| |    || ||||  ||     || |       ||  ||| | |    |  | |  |||          || | ||  || ||| ||  |||||||||| |||||||| |||||||||||||| ||||| ||||| || || || ||||||||||||||  |||||
--caaatcaaacagtccttacaattcctgcatgaattttgttttggatacatatctttgttcattgtttttctacctaaattatcttcctgggcacttgtagAGTCTTGACAAGAATTGTTTGGGTCCATTGAGGAAAGCTTATTGCAGTTCTCTAAACTTGCTTCTTCGCAGAGAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 3'ss of exon 12
gtcatattaaatacgaatttcaatgactatccaaagtggtgacacacccact--tatacttctttcttttgtttttgtgcat-ttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAG
       ||||  |||     ||||||||    |  || | | |  | || |    ||| |   |   |||| ||  | | | || ||| |||||||||||||||| ||||| |||||||||||||| || || |||||||| |||||||| ||||||||||||
------gtaaaaccgaga---aatgactaggtgacatgctaa-atgctcaatgcagtacattgattccttgtcttctttcttgttgcagGGTCTTGATAAGAATTGTTTGGGACCATTGAGAAAAGCATACTGCAGCTCCCTGAACTTGCTCCTTCGTCGAGAG

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 12
gtcatattaaatacgaatttcaatgactatccaaagtggtgacacacccactta-tacttctttcttttgtttttgtgcat-ttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAG
       ||||  |||     |||| |||    |  || | | |   |||   | ||| |   |   |||| |   | | | || ||| ||||| |||||||||| ||||| |||||||||||||| || || |||||||| |||||||| ||||||||||||
------gtaaaaccgaga---aatggctaggtgacatgctaaaagctccatgcagtacattgattgcttgtctcctttcttgttgcagGGTCTTAATAAGAATTGTTTGGGACCATTGAGAAAAGCATACTGCAGCTCCCTGAACTTGCTCCTTCGTCGAGAG

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|30130173|gb|CB915512.1|CB915512
EST:     ATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAG                         AGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCC
genomic: ATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaa ... gcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCC
EST: gi|30305614|gb|CB982408.1|CB982408
EST:     ATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAG                         AGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCC
genomic: ATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaa ... gcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaagtggtgacacacccacttatacttctttcttttgtttttgtgcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAG
                         cttctttcttttgttt  CT-rich tract
                             tttcttttgttttt  TA-rich tract