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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttctccacatttttctcattttgtttgttgcgtcataaggctgcatataggtacaattaattttttttgcatcataaactatttcaattttatttgttcctttcttcttaatggttcaagctatggtcatttataacccaaaatactttttattctgttctctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT

Basic information

species Vitis vinifera
transcript Vv11s0206g00130.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g73300.1 (Oryza sativa), 3'ss of exon 3
gtatttctccacatttttctcattttgtttgttgcgtcataaggctgcatataggtacaattaattttttttgcatcataaactatttcaattttatttgttcctttcttcttaatggttcaa-gct--atggtcatttataacccaaaatactttttattctgttctc---tttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT
                                                                                        | || ||||||  |  ||  || | || ||| ||  |||  |  |    || ||     ||| |  |  | |  || |  |   ||   | ||| ||||||||||| |||||||| |||||| ||||||||||||| || |||||||||||||| |||||||||
--------------------------------------------------------------------------------------ggccatattattttcttgttaattgtcaacggtgcaccgcttaactgatgcttgtattgttaaacatctaatttcttgcttcccaattattattctgcagGATCCTGCAGAGGCTGACAAGTTGCTGAAAATTCAGAGGGATTTGGATGAAACTAAGATTATTCTT

upper sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g64650.1 (Oryza sativa), 3'ss of exon 3
gtatttctccacatttttctcattttgtttgttgcgtcataaggctgcatataggtacaattaattttttttgcatcataaactatttcaattttatttgttcctttcttcttaatggttcaagctatggtcatttataacccaaaatactttttattctgttctctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT
                                                                   | ||    || |      |   || |      || | |     |  | ||  ||  || |||    ||| |      | |||  ||  |||   || | ||          |||| ||||| |||||||| |||||  ||||||| ||||| || ||||||||||| |||||||| || 
-------------------------------------------------------------------tcttcttgtccttgttggtccaaact--gccagtacttaaacacgcactgcatcctgc-atgaatgttt-tcttatgagataacttg-atttcattattttg--------tagGACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTA

upper sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G387076_T02 (Zea mays), 3'ss of exon 4
gtatttctccacatttttctcattttgtttgttgcgtcataaggctgcatataggtacaattaattttttttgcatcataaactatttcaattttatttgttcctttcttcttaatggttcaagctatggtcatttataacccaaaatactttttattc-tgttctctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT
                                                                              | |  |  || |  ||   || | ||| | ||| |      || | ||    ||||  | || |  | || |    || || || | | ||    ||  | ||||||||||||| ||||| || ||  ||||||||||||| || ||||||||||| |||||||| || 
-----------------------------------------------------------------------------gttatgtggttgatattggattatgcctgtattcctttacactctatctgcc-tcataaagaagc--atattcacactactcatgatatgttcatcattgt-agGATCCTGCGGAAGCTGACAAATTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATCCTA

upper sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 3
gtatttctccacatttttctcattttgtttgttgcgtcataaggctgcatataggtacaattaattttttttgcatcataaactatttcaattttatttgttcctttcttcttaatggttcaagctatggtcatttataacccaaaatactttttattctgttctctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT
                                                             |   |  |  || || ||   || | |||  ||||     |   | | || ||  |   ||  ||   || | | ||    ||  ||| | || ||| |||                |||| |||||||| ||||| ||  |  ||||||||||||| || ||||||||||| ||||||||||||
-------------------------------------------------------------tggctgatactggattatgc-ctgtatca-ctttacaccctatctgcctcatacggaagcatactcacgttactcatgggtcatgata-tgttcattttgt----------------agGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT

upper sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G19950.1 (Glycine max), 3'ss of exon 3
gtatttctccacatttttctcattttgtttgttgcgtcata-aggctgcatataggtacaattaattttttttgcatcataaactatttcaatttt----att-tgttcctttcttcttaatggttcaagctatggtcatttataacccaaaatactttttattctgttctctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT
                 | | | |   | | ||  ||  ||   ||| ||  |||    | ||  |  ||||||  | | ||| |  |||||| ||    ||| |||| | |||| || |    || |    |   | || ||| || ||||   |||| |   |||||| || | |||||||||||||||||| |||||||| |||||| |||||||||||||||||||||||||||| ||||| || |||
--------------gcatgtaaatacctcttttatgttgtatgagcttcagttagagg-agttgttgatttttgtttgaaaaaattgttcaatattctaaattgtgttacattctgctaaccttttta---cacaattatgtatgactcaaacccctttat---ctgttc-ctgtcaaatcttcagGATCCTGCAGAGGCTGACAAGTTGATGAAAATTCAGAGAGAGTTGGATGAAACAAAAATCATCCTT

upper sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G13840.1 (Glycine max), 3'ss of exon 3
gtatttctccacatttttctcattttgtttgttgcgtcataaggctgcatataggtacaattaattttttttgcatcataaactatttcaattttatttgttcctttcttcttaatggttcaagc---tatggtcatttataacccaaaatactttttattctgttctctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT
                                              |||||||  |||   |  ||| | |||  |   |||  | ||   ||| ||||  |   || |  |  ||  | | | |   | |   ||  ||| || ||||   |||| |   |||||| || | |||||||||||||||||| ||||| || |||||| ||||||| |||||||||||||||||||| ||||| || |||
----------------------------------------------gcatataaatacccctt-tttatgttgtctggcaaaacaatt--gtttgattttctaaattgtgttacattctgctaacctttttacacaagtatgactcaaacccctttat---ctgttc-ctgtcaaatcttcagGATCCTGCAGAGGCAGACAAGTTGATGAAAATCCAGAGAGAGTTGGATGAAACCAAAATCATCCTT

upper sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G58060.2 (Arabidopsis thaliana), 3'ss of exon 4
gtatttctccacatttttctcattttgtttgttgcgtcataaggctgcatataggtacaattaattttttttgcatcataaactatttcaattttatttgttcctttcttcttaatggttcaagctatggtcatttataacccaaaatactttttattctgttc--tctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT
                                                                               ||   |||| | |        ||  ||| |    |   |||  |  |   || ||||  | |  ||| |  ||||     ||| |  | |||| ||||||||||| || || |||||||||||| |||||||||| ||||| ||||||||||| || || ||||| |||
-------------------------------------------------------------------------------aattaattttagtagcccccattgttttatgaccat--gttggattttgagtgatttg-atcttaaattgattttgggattgtcccgtatttgtaatcttcagGACCCAGCAGAGGCTGATAAGCTGTTGAAAATCCAGAGGGAGTTGGATGAGACAAAGATTATCCTT

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|351017097|gb|FQ424524.1|FQ424524
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|33408128|gb|CF213755.1|CF213755
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|349824324|gb|FQ417683.1|FQ417683
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|71881424|gb|DT030479.1|DT030479
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|33408558|gb|CF214185.1|CF214185
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|110390655|gb|EC955577.1|EC955577
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|71876275|gb|DT025330.1|DT025330
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|71866199|gb|DT015254.1|DT015254
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|110709953|gb|EE085862.1|EE085862
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|351028488|gb|FQ444769.1|FQ444769
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|110691734|gb|EE070172.1|EE070172
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|71876274|gb|DT025329.1|DT025329
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|110725014|gb|EE101356.1|EE101356
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|294966596|gb|GW837731.1|GW837731
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|110709110|gb|EE084283.1|EE084283
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAA                         GATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|71869605|gb|DT018660.1|DT018660
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|351018531|gb|FQ424638.1|FQ424638
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|351028310|gb|FQ427206.1|FQ427206
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
EST: gi|110371348|gb|EC935304.1|EC935304
EST:     ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAG                         GATCCTGCAGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA
genomic: ATAACACTCAACCATGGCCCTATTTGAATGAAGCACTAGCCAAATTTCAGgtatttctcc ... aaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggtcatttataacccaaaatactttttattctgttctctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT
         ttataac  putative branch site (score: 2)
                                                tcttc  putative PPT
                  aaaatactttttattc  TA-rich tract