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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctctgcaactctcatttttctttgttttctttctgatcaatattctatttgttttgcattgttttatttaatctgaatgtgaatcgtttctatttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGAAAAGACTACGGCAGGCTCGTCGTCATAGTCGACGTCATTGATCAGAATC

Basic information

species Vitis vinifera
transcript Vv05s0049g01310.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g43540.1 (Oryza sativa), 3'ss of exon 1
gtgagtctctgcaactctcatttttctttgttttctttctgatcaatattctatttgttttgcattgttttatttaatctgaatgtgaatcgtttctatttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGAAAAGACTACGGCAGGCTCGTCGTCATAGTCGACGTCATTGATCAGAATC
       |  | | || ||        |||       |||  ||  |||    |       || |||||      | | ||  ||||             | || |||| |||||| ||| ||||||| ||||||| || || || || |||||||| || ||||||||| | ||||||||||| ||||| ||| | || |||||  
------gtagggagctgtcgcgaaatcttgcccgtcgtctcgtcggtatgtgctgatgcgcgcgttgtt------actgtgcttgtg------------ctgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATTGTCGATGTCGTCGACCAGAACA

upper sequence: Vv05s0049g01310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g40880.1 (Oryza sativa), 3'ss of exon 1
----gtgagtctctgcaa-ctc-tcatttt-tctttgttttctttctgatcaatattctatt-----tgttttgcattgttttatttaatctgaatgtgaatcgttt---ctatttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGAAAAGACTACGGCAGGCTCGTCGTCATAGTCGACGTCATTGATCAGAATC
    |||  || | |    ||| || | ||  |   |||  | ||| | |     |  |  |     || |||| ||||      |   | |||  | |  |  |||   |  ||  || |||| |||||| ||| ||||||| ||||||| || || || || |||||||| || ||||||||| | ||||||||||| || || ||| | || ||||| |
gtaggtggatcgccgtgggctcgtcgtcttgccgccgttgccgttccggtggtggtggtggtggtggtgctttggattgcgcgcgtgtgtttgaccggggtttttttgtgcctttcgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGGGTGGCCCTGGTGAACTACGGCAAGGACTACGGCCGCCTCGTCGTCATCGTTGATGTCGTCGACCAGAACC

upper sequence: Vv05s0049g01310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G168330_T02 (Zea mays), 3'ss of exon 1
gtgagtctctgcaactctcatttttctttgttttctttctgatcaatattctatttgttttgcattgttttatttaatctgaatgtgaatcgtttctatttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGAAAAGACTACGGCAGGCTCGTCGTCATAGTCGACGTCATTGATCAGAATC
         |    |  |     ||  | || ||  |||   |     || |         ||   |||| |  |     |  ||||        |||| | || |||| |||||| ||| ||||||| ||||||| || || || || |||||||| |||||||||||| | ||||||||||| ||||| ||  | || |||||  
--------gtatgtcaattgcgcttgctggtgttagttcgagtaggggttatga-------gcggggtttgacctgggg-gtttgtgtgcttgcgctatgtgtgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGCGTGGCCCTTGTGAACTACGGCAAAGACTACGGCCGCCTCGTCGTCATCGTCGATGTGGTCGACCAGAACA

upper sequence: Vv05s0049g01310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G028883_T01 (Zea mays), 3'ss of exon 1
gtgagtctctgcaactctcatttttctttgttttctttctgatcaatattctatttgttttgcattgttttatt--taatctgaatgtgaatcgtttctatttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGAAAAGACTACGGCAGGCTCGTCGTCATAGTCGACGTCATTGATCAGAATC
          | |  | ||        |  ||  |      |    | || | ||| | |||   |  ||   |  | ||  | |  ||      ||    ||| | |||| |||||| ||| ||||||| |||||||||| || || || |||||||| || || || ||| | ||||||||||| ||||||||| | || |||||  
----------gtatatgtctcccgatatcattcccgcatcaaggggtcttgtctttttgttgttgttgttggctaatgatgcgcacctgttgatgttgcggttccgcagCCGTTCAAGAGGTTCGTGGAGATCGGGCGAGTGGCCCTTGTAAACTACGGCAAGGAGTATGGCCGCCTCGTCGTCATCGTCGACGTCGTCGACCAGAACA

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|27581928|gb|CB004623.1|CB004623
EST:     CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|110690588|gb|EE067820.1|EE067820
EST:     CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|110691773|gb|EE070259.1|EE070259
EST:     CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|110397687|gb|EC963510.1|EC963510
EST:     TTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: TTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|110724784|gb|EE100916.1|EE100916
EST:     CATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|71879325|gb|DT028380.1|DT028380
EST:     CCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|77588138|gb|DV223280.1|DV223280
EST:     CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|71883824|gb|DT032879.1|DT032879
EST:     CTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|110375750|gb|EC940763.1|EC940763
EST:     CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|110689055|gb|EE064943.1|EE064943
EST:     CTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|34320490|gb|CF373244.1|CF373244
EST:     TGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: TGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|27584222|gb|CB006917.1|CB006917
EST:     ATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: ATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|110731703|gb|EE106347.1|EE106347
EST:     ATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: ATCTTCCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA
EST: gi|110705265|gb|EE081950.1|EE081950
EST:     CCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATG                         CCTTTCAAGCGGTACGTGGAGATCGGGCGAGTCGCTCTCGTCAACTACGGA
genomic: CCATTTTTCCCCTCCCTGCTGTCAGCCGCGCCCTAGCAAATATGgtgagtctct ... atttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgttttgcattgttttatttaatctgaatgtgaatcgtttctatttctgtagCCTTTCAAGCGGTACGTGGAGGTCGGGCGAGTCGCTCTCGTCAACTACGGAAAAGACTACGGCAGGCTCGTCGTCATAGTCGACGTCATTGATCAGAATC
                   atttaat  putative branch site (score: 4)
                                     tcgtttctatttct  putative PPT
     ttttgcattgttttat  TA-rich tract