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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtattccccttgtttgggagatttgtgtcaagagtactgatttctcatggttgaagaatcatctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACCGATACTATGACCCAAAAACAGTTGGCTTGGATTTTGATGGGATGATATC

Basic information

species Vitis vinifera
transcript Vv04s0008g06040.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g55420.1 (Oryza sativa), 3'ss of exon 6
-----------------------------gtgagtattcccctt---gtttgggagatttgtgtcaagagtactgatttctcatggttgaagaatcatctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACCGATACTATGACCCAAAAACAGTTGGCTTGGATTTTGATGGGATGATATC
                              |||| ||||  |||    |||   ||    |||||       |  | ||   |   |  ||     ||  || |||| ||||||||||| |||||||||||||| |  || || ||||| || ||||| || || ||||| || || ||||||||||||||||| || |||||| |
gtatgtatgtgaattaatgtgcttaatctttgagcattcaacttcatttttcatagcagagtgtctcattggcaaactttgaac--tccaatctatattcttacagGCAATCACAAGAACATTTTCAATGATGCAAAGGTACCTTGGTCAGAGTACCGTTATTACGACCCCAAGACTGTTGGCTTGGATTTTGAGGGAATGATAGC

upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM5G836910_T01 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------------gtgagtattccccttgtttgg-gagatttg---tgtcaagagtactgatttctcatg--gttgaagaatcatctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACCGATACTATGACCCAAAAACAGTTGGCTTGGATTTTGATGGGATGATATC
                                                                  || |   ||    | ||||| || |||||   ||||||     | || |||| ||    || |     | | ||  ||||||| ||||||||||| |||||||||||||| || || ||||| || ||||| || |||||||| || || ||||| ||||||||||| || |||||| |
gtaagtatgttgatgcaactattcttcatgacttgatgtacctaccaaaatcatgactcatagtcttgggctctcattgtttttggtgaaatttgaagtgtcaaagtggcggacttctaatttcattcattctacttgttaacagGTAACCACAAGAATATCTTCAATGATGCTAGGGTACCTTGGTCAGAGTACCGGTATTATGACCCCAAGACTGTTGGGTTGGATTTTGAGGGAATGATAGC

upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G13480.2 (Glycine max), 3'ss of exon 6
----------------gtgagtattccccttgtttgggagatttgtgtcaagagtactgatttctcatggttgaagaatcatctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACCGATACTATGACCCAAAAACAGTTGGCTTGGATTTTGATGGGATGATATC
                 |   |  |   |||| | | || | |||| |   |||| |  |  ||    |||   |  ||  |||| ||||||||||||||||||||||||||||||||||| || || |||||||| |||||||| ||||| || || |||||||||||||||||||| || ||||||  
gtatgtatctgactgcttctctgcttaacttggtcgtgatacttgt-ttgggagttcaaacatcctg-ggtaacattattgtctt-gcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGA

upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 6
----------------gtgagtattccccttgtttgggagatttgtgtcaagagtactgatttctcatggttgaagaatcatctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACCGATACTATGACCCAAAAACAGTTGGCTTGGATTTTGATGGGATGATATC
                 |   |  |   |||| | | || |||||| |   |||| |  |  || | ||||   |  ||  |||| | ||||||||||||||||||||||||||||||||| || || |||||||| |||||||| ||||| || || |||||||| ||||||||||| || |||||   
gtatgcattttactgcttccctgattaacttggtcgtgatatttgt-tagggagttcaaacatccc-tggtaacattattgtctt-gtagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGGTTGGATTTTGAGGGCATGATTGA

upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 7
----------gtgagtattccccttgtttgggagatttg-tgtcaagagtactgatttctcatggttgaa-gaatcatctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACCGATACTATGACCCAAAAACAGTTGGCTTGGATTTTGATGGGATGATATC
           |||  |    | || |||| | |||||| | |||    ||      | |      || |  ||  | |    ||||||||||||||||||| ||||||||||| | |||||| ||||| |||||||| |||||||| ||||||||| |||| ||||||||||| || |||||| |
gtacattgtcttgaccacaaacatt-tttgagtgatttggtttcatatttaaccgcctttatcaactgtacaaaataccacatcagGTAATCACAAGAATATCTTCAATGATGCCAAAGTTCCGTGGTCCGAATACCGCTACTATGATCCAAAAACAATTGGTTTGGATTTTGAGGGAATGATAGC

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|294965358|gb|GW837073.1|GW837073
EST:     AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
EST: gi|32270026|gb|CD719185.1|CD719185
EST:     GTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: GTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
EST: gi|32272538|gb|CD721697.1|CD721697
EST:     GTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: GTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
EST: gi|30326281|gb|CD009543.1|CD009543
EST:     GTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: GTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
EST: gi|161712612|gb|FC062214.1|FC062214
EST:     AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGG                         GTAAATCACA-GAATATTTTTCA-TGATGCTAGAGTTCCCTGGTCTG
genomic: AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAA-TCACAAGAATATTTT-CAATGATGCTAGAGTTCCCTGGTCTG
EST: gi|30326632|gb|CD009894.1|CD009894
EST:     GTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: GTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
EST: gi|29785081|gb|CB341792.2|CB341792
EST:     AGAACGATATTTTCCTGGGGCAAGAGTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
EST: gi|161707802|gb|FC056449.1|FC056449
EST:     AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
EST: gi|32271796|gb|CD720955.1|CD720955
EST:     GTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: GTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
EST: gi|352787010|gb|FQ476043.1|FQ476043
EST:     AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC
genomic: AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGCCAACATGGGgtgagtattc ... atctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggagatttgtgtcaagagtactgatttctcatggttgaagaatcatctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACCGATACTATGACCCAAAAACAGTTGGCTTGGATTTTGATGGGATGATATC
                   tactgat  putative branch site (score: 2)
                                           tcatcttt  putative PPT