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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcttttgaactgcttattattattattattattttccaatcacaatcattttcatattacaagtactgtctatgtgtgtgtgcgcgcgcatgcgcatgcgtgcatgtgctaggctgcttgaattttcagactaatctttgcattttgtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCACTACCTTCTGGTCGCCTTAGTATACCTCATGCAGTCACCTGGGCTTCTT

Basic information

species Vitis vinifera
transcript Vv15s0021g00430.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g34390.1 (Oryza sativa), 3'ss of exon 2
gtttcttttgaactgcttattattattattattattttccaatcacaatcattttcatattacaagtactgtctatgtgtgtgtgcgcgcgcatgcgcatgcgtgcatgtgctaggctgcttgaattttcagactaatctttgcattttgtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCACTACCTTCTGGTCGCCTTAGTATACCTCATGCAGTCACCTGGGCTTCTT
                                                      || | | |  |    ||| |  ||    | |     | |||  |    || | ||   || ||    || || |  | ||   |      |  || | || |||||||||||||||||| ||||| ||||||||||| ||||| ||| || |||| ||||| || || ||| |||||    | ||||| | ||  |||||| || 
----------------------------------------------------cctcgt-taattatagttgttttcgttca-gagaaaatgaatgttc---tgtacttgctttaagc-atctgtatctgaatacagtttgaaataactt-tgtttttagGTGTTTGAGATAAAGAATGACGCTAAAATGAAAAGAACCATGCGACGGCCCCTACCATCAGGGCGCATTAGTCCTGCACATGCTGCCATGTGGGCTACTA

upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G178859_T01 (Zea mays), 3'ss of exon 2
gtttcttttgaactgcttattattattattattattttccaatcacaatcattttcatattacaagtactgtctatgtgtgtgtgcgcgcgcatgcgcatgcgtgcatgtgctaggctgcttgaattttcagactaatctttgcattttgtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCACTACCTTCTGGTCGCCTTAGTATACCTCATGCAGTCACCTGGGCTTCTT
                                                       |  | ||  | ||   ||| | ||    |||  |  | | |    ||   |    || |       |   | |||   || ||| ||  |    ||| | | |||||||||||||||| ||||||||||||||||| || |||||| || |||| || || ||||||||| |||||    | ||||| |  |  |||||| |  
-------------------------------------------------------ccaaatatgaataac-tctgtttgaacttgc-tgtacttacttcagctgccccaggccaaaacaactctgtattctttctgatcatt--aacacgtactttcagGTGTTTGAGATAAAAAATGATGCTAAAATGAAAAGGACAATGCGACGGCCCCTGCCATCTGGTCGCATTAGTCCTGCACATGCTGCGATGTGGGCTACAA

upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G162776_T01 (Zea mays), 3'ss of exon 2
-gtttcttttgaactgcttattat-tattattattattttccaatcacaatcattttcatattacaagtactgtctatgtgtgtgtgcgcgcgcatgcgcatgcgtgcatgtgctaggctgcttgaattttcagactaatctttg-cattttgtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCACTACCTTCTGGTCGCCTTAGTATACCTCATGCAGTCACCTGGGCTTCTT
  | || |     |  |  |||   |  |||    | ||    ||    | |  || | ||| |    ||   |||   ||    |||  |  | | |    || |||     | |  |  ||  | | |||   || |||  |  ||     || | | ||||||| |||||||| ||||||||||||||||| || ||||||                                                          
tatatcctccttcccacacattgcgtcgtatctggaattctggatttggagctattgcctat-atggataac-tctggttgaacatgc-tgtacttactttagC-TGCCCCCCCAAAACAACTC-AGTATTCTCTCTGATCAATAACAACGCCTACTTTCAGGTGTTCGAGATAAAAAATGATGCTAAAATGAAAAGGACAATGC---------------------------------------------------------

upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G162776_T03 (Zea mays), 3'ss of exon 2
gtttcttttgaactgcttattattattattattattttccaatcacaatcattttcatattacaagtactgtctatgtgtgtgtgcgcgcgcatgcgcatgcgtgcatgtgctaggctgcttgaattttcagactaatct-ttgcattttgtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCACTACCTTCTGGTCGCCTTAGTATACCTCATGCAGTCACCTGGGCTTCTT
                                                        ||||    |   |||  |     ||  ||  |   | |  ||     |||     | |  |  ||  | | |||   || |||  |  ||     || | | ||||||| |||||||| ||||||||||||||||| || |||||| || | || || || ||||||||| | |||    | ||||| |  |  |||||| |  
-----------------------------------------------------cctatatggataactctggttgaacatgc-tgtacttactttagc-----tgcccccccaaaacaactc-agtattctctctgatcaataacaacgcctactttcagGTGTTCGAGATAAAAAATGATGCTAAAATGAAAAGGACAATGCGACGTCCCCTGCCATCTGGTCGCATCAGTCCTGCACATGCTGCAATGTGGGCTACAA

upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G43980.1 (Glycine max), 3'ss of exon 3
gtttcttttgaactgcttattattattattattattttccaat-cacaatcattttcatattacaagtactgtct--atgtgtgtgtgcgcgcgcatgcgcatgc-gtgcatgtgctaggctg---cttgaattttcagacta------atctttgca----ttttgtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCACTACCTTCTGGTCGCCTTAGTATACCTCATGCAGTCACCTGGGCTTCTT
|||| |||    ||   |||  | | | |||||| | || |||  |  ||  || | ||     ||  ||  | |  ||   | ||| |    | ||| || |    | |       | ||||   |||  |||||  | | |      |||| | ||    || | | || ||||||||||||||| ||||||||||||||||||||||||||||   ||||||||||||| || || ||| | |  ||||||||||| ||   || ||| || |
gtttttttccttctagctat-gtaactgttattaatgtcaaatatattatttttattatggcttaaagaccttttaaatagatttgttctgaagtatgtgctttttattcccccttaatgctgtctcttagatttttggtcaacgtaagatctattcaatggttgtctctttttagGTGTTTGAGATCAATAATGATGCTAAAATGAAGAGAACAAGTCGAAGGCCACTACCCTCAGGACGCATCACAATACCTCATGCTGTTGGCTCGGCATCCT

upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G38710.1 (Glycine max), 3'ss of exon 2
gtttcttttgaactgcttattattattattattattttccaatcacaatcattttcatattacaagtactgtctatgtgtgtgtgcgcgcgcatgcgcatgcgtgcatgtgctaggctgcttg--aattttcagactaatctttgcattttgtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCACTACCTTCTGGTCGCCTTAGTATACCTCATGCAGTCACCTGGGCTTCTT
                                                             |  ||   |||      || || ||       | | | |   |||   || ||   |  | |  ||  |     ||| ||  ||  | ||   || ||||||||||||||| ||||||||||||||||||||||||||||   | ||||||||||| || || ||| | |  ||||||||||||||   |||||| || |
-------------------------------------------------------------aatagatttgttctgaagtatgggctttttattcccccttaatgctgctgttaaatttttggtcaacataagatctattcaatggctgtttcttttttagGTGTTTGAGATCAATAATGATGCTAAAATGAAGAGAACAAGTCGCAGGCCACTACCCTCAGGACGCATCACAATACCTCATGCAGTTGGCTGGGCATCCT

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|71863172|gb|DT012227.1|DT012227
EST:     CTTGTGCTGGTACCATGATGGTTGCAGCATCCGCTAACTCCTTAAATCAG                         GTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCA
genomic: CTTGTGCTGGTACCATGATGGTTGCAGCATCCGCTAACTCCTTAAATCAGgtttcttttg ... gtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCA
EST: gi|71862702|gb|DT011757.1|DT011757
EST:     CTTGTGCTGGTACCATGATGGTTGCAGCATCTGCTAACTCCTTAAATCAG                         GTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCA
genomic: CTTGTGCTGGTACCATGATGGTTGCAGCATCCGCTAACTCCTTAAATCAGgtttcttttg ... gtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCA
EST: gi|71864008|gb|DT013063.1|DT013063
EST:     CTTGTGCTGGTACCATGATGGTTGCAGCATCTGCTAACTCCTTAAATCAG                         GTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCA
genomic: CTTGTGCTGGTACCATGATGGTTGCAGCATCCGCTAACTCCTTAAATCAGgtttcttttg ... gtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCA
EST: gi|71862137|gb|DT011192.1|DT011192
EST:     CTTGTGCTGGTACCATGATGGTTGCAGCATCTGCTAACTCCTTAAATCAG                         GTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCA
genomic: CTTGTGCTGGTACCATGATGGTTGCAGCATCCGCTAACTCCTTAAATCAGgtttcttttg ... gtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgtgctaggctgcttgaattttcagactaatctttgcattttgtattgttagGTGTTTGAGATAAATAATGATGCTAAAATGAAGAGAACAATGAGAAGGCCACTACCTTCTGGTCGCCTTAGTATACCTCATGCAGTCACCTGGGCTTCTT
                           gactaat  putative branch site (score: 2)
                                        attttgtattgtta  TA-rich tract