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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgactttctttagattgttttggttacgtgaaactgtttagttcttagtttcttatttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT

Basic information

species Vitis vinifera
transcript Vv12s0059g00640.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 3'ss of exon 9
-------------------gtaagtgactttctttagattgttttggttacgtgaaactgtttagttcttagtttctta---tttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT
                    ||| ||   ||  | | | ||| |   || | |    ||  |    ||  | |||  ||   |||||  |   || | |  |||||| ||||||||| ||||||| ||| ||||||||||||| ||  |||||||||||||||| || || ||||| || ||  | ||||| ||||||||||||
gtaagtgcatcacatggttttaactgttctttctgacaatgtctcctttcctttt--ctcatgccctcaaaatttgctaagttttgttaacccttgtctc-cagGGGTGTGAGATACTATGAACCTGAGCATTGGAAATTTGGCGAACCAGGAAACAAATATTTTCGGCATGCTACTGGTCAATTGTATGCTATTTCAAAAGAT

upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 8
-----------------------gtaagtgactttctttagattgttttggttacgtgaaactgtttagttcttagtttcttatttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT
                        |  |  | |||| | | |  ||  |   || ||     |  ||  ||  ||| |||||| ||  |||  || |||   ||| || || || ||||||||||| || || ||||||||||| ||||| |||||||| || ||||| ||||| ||||||||| | ||||||||||||||||||
gtgagaatcatattcttgtatccttgtgcta-tttcatgaaagggtcataaatatgtagtgtt--ttcatttctagcttcttagtttgccactttcttg---cagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAACAAGTACTTCCGCCACGCCACAGGACAGTTGTATGCCATTTCAAAAGAT

upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 8
----gtaagtgactttctttag----attgttttggttacgtgaaactgtttagttcttagtttcttatttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT
    | || ||| |||||||      ||||  |||  |   | || || |||   |  | | |||| | ||| ||   ||| |   |||| || || || ||||||||||| ||||| ||||| ||||| ||||| ||||||| ||| |||||||| || ||||||||| | |||||||||||||| |||
gtgagaaaatgattttctttgtttttattgaattgaattattaaagctctttgacttgttgcttctaacttgccctactttgttgcacagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAGTTTGGAGAGGCTGGAAACAGATACTTCCGTCATGCCACAGGACAGTTGTATGCCATTTCAAACGAT

upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G38500.1 (Glycine max), 3'ss of exon 8
-------------------gtaagtgactttcttta-gattgttttggttacgtgaaactgtttagttcttagtttcttatttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT
                    |   ||   |  || | ||  |  |     |  || ||   |||   |  ||| |||||| ||| |||  || |||   ||| || || || ||||||||||| || || ||||||||||| ||||| |||||||| || ||||| ||||| || |||||| | ||||||||||||||||||
gtgagaataattttcttttatccttgtgctatttcatgaaagggtcaaaaatatgtaatgctttcacttctagcttcttacttggccactttcttg---cagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCTGGAAACAAGTACTTCCGCCACGCCACTGGACAGTTGTATGCCATTTCAAAAGAT

upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 8
-------gtaagtgactttctttagattgttttggttacgtgaaactgtttagttcttagtttcttatttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT
        |   |   ||| |||  ||||  |||  |   | || |  |||      ||| |||| |  ||   |    |||||  ||| || || || ||||||||||| ||||| ||||||||||| ||||| |||||||  || |||||||| || ||||| ||| | ||||||||||| || |||
gtgagaaatgcttatttttgtttttattgaattgaattactaaagcactttgacctgtagcttctaacctgagaaatactttgttgcagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAACAGGTACTTCCGTCATGCCACAGGGCAGTTGTATGCCATTTCGAATGAT

upper sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 8
--gtaagtgactttctttagattgttttggttacgtgaaactgtttagttcttagtttcttatttgtccatatttt-----tgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT
   |||     ||||| |   ||   ||  ||   |||| || |||    || |||||  | ||    || |||||     || | ||| ||||| ||||||||||| || |||||||||||||||||||||   |||||||| || |||||||||||||| |||||| |||| |||||||| | ||| 
gtataatcccatttctctcacttaccttctttt--tgaatctcttt----ctcagttttgttttaactcacattttgtctatggagcagAGGAGTTAGATACCATGAGCCTGAGTATTGGAAATTTGGTGAGAATGGAAACAAGTACTTCCGTCACGCTACTGGACAGTTATACGCCATTTCTAGAGAC

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|30137885|gb|CB923223.1|CB923223
EST:     CCTCGGGTGTATATTGGATGCATGAAATCTGGTCCAGTCCTTGCTCAGAA                         GGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAA
genomic: CCTCGGGTGTATATTGGATGCATGAAATCTGGTCCAGTCCTTGCTCAGAAgtaagtgact ... tttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttacgtgaaactgtttagttcttagtttcttatttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT
                                         tattttt  CT-rich tract
                      ttagtttcttattt  TA-rich tract