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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaaagaaaagactctggattaataattttcattagcaatctttaacagtatcctgaattgaactgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTGCCCTGGAACCTAGAGACCGGCCATGAGTGTGCTTTCTGTTGAATGTGTA

Basic information

species Vitis vinifera
transcript Vv10s0405g00020.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os07g39630.1 (Oryza sativa), 3'ss of exon 10
--------------------------gtataaaagaaaagactctgg-attaataattttcattagcaatctttaacagtatcctgaattgaactgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG--CCCTGGAACCTAGAGACCGGCCATGAGTGTGCTTTCTGTTGAATGTGTA
                           | |  |  ||  |  | ||  ||   |   | ||||| |||  | | | |      | |  ||    | |  |||||||||||||||| |||||||||||||  || ||  | |  || ||  |||  |  | |   |          ||  | |   |||||  ||  |||| || 
atatctattaagctttcccactgtagctgttcatcaatgggatttgatatgcctctatatcatttgca--catgagctaatagcagtgttatggtttatcagAGGATGAACAGTTCGAGGCAGACAAAGAGCAGGTCATAAAGGAGATATCTGCACTTTAGTGTCCTTCTGTATACCTCGCGGAGGCTTTTGGTC-AATGCGT-

upper sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G01180.1 (Glycine max), 3'ss of exon 9
---gtataaaagaa-aagactctggattaataattttc----attagcaatctttaacagtatcctgaattgaactgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTGCCCTGGAACCTAGAGACCGGCCATGAG-TGTGCTTTCTGTTGAATGTGTA-
    |  ||      | || | || | |     |||||    ||||     || | | |  ||  | | | | | |||  |||||||||||||||| || || || |||||||||||| | | ||||||||| || || |||||||| ||||   | |||| |    ||| ||| || |    | 
gtgatgcaatttcttatgaatttgtacttgcttttttctggtattatgttcctatgatatcatatttactgggattgt-gcagagGATGAACAGTTCGAAGCTGATAAAGCTCAAGTTATAAAAGAAATTGCGGCTCTTGAACCTAGGGACCTCGCTTGAGCTTCAGTTTGTGTCGAGTAACAAG

upper sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G01180.2 (Glycine max), 3'ss of exon 9
-----------gtataaaagaa-aagactctggattaataattttc----attagcaatctttaacagtatcctgaattgaactgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTGCCCTGGAACCTAGAGACCGGCCATGAG-TGTGCTTTCTGTTGAATGTGTA
            |  ||      | || | || | |     |||||    ||||     || | | |  ||  | | | | | |||  |||||||||||||||| || || || |||||||||||| | | ||||||||| || || |||||||| ||||   | |||| |    ||| ||| || |    |
gtaaggaggtgatgcaatttcttatgaatttgtacttgcttttttctggtattatgttcctatgatatcatatttactgggattgt-gcagAGGATGAACAGTTCGAAGCTGATAAAGCTCAAGTTATAAAAGAAATTGCGGCTCTTGAACCTAGGGACCTCGCTTGAGCTTCAGTTTGTGTCGAGTA-ACA

upper sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G01370.3 (Glycine max), 3'ss of exon 10
----------gtataaaagaaaagact--ctggattaataattttcattagcaatctttaacagt-atcctgaattgaactgtca-----cagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTGCCCTGGAACCTAGAGACCGGCCATGAGTGTGCTTTCTGTTGAATGTGTA--
            ||      | ||  |   ||  || ||| | |  |||| || | | | |   | | | |  | ||   ||| |     ||||||||||||| ||||| || ||||||||||||||  |||| |||||||  || ||  || | ||  | | || | |    ||    |||   | |||||   
gtaagtgatgtcatctcttgatagtttagttgcttttatagtatcaattatcagtttctgatgatcagcttttaatgtgttgtgattgtgcagAGGATGAACAATTTGAAGCTGACAAAGCTCAAGTGATGAGGGAAATTGAAGCTCTTTAAACAAGGAAACAGCGACGCACCTGAA--CTGCAAATTGTGTTAA

upper sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G12220.2 (Glycine max), 3'ss of exon 8
------------------gtataaaagaaaagactctgg-attaataattttca-ttagcaatctttaacagtatcctgaattgaactgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTGCCCTGGAACCTAGAGACCGGCCATGAGTGTGCTTTCTGTTGAATGTGTA--
                  | |||    |   |  | |     ||  |||| ||| ||    ||   | |    ||  ||  |||   |    ||||||||||||| ||||| || ||||||||||||||  |||| |||||||  || ||  || | || || |  | | |    ||    |||   | |||||   
gtaagtgatgtcatctctggatagtttagttgctttttatggtatcaattatcagtttctcattcatgatcacatg-tgtgttgtgattgtgcagAGGATGAACAATTTGAAGCCGACAAAGCTCAAGTGATGAGGGAAATTGAAGCTCTTTAAACAAGGGAACAACGACGCACCTGAA--CTGCAAATTGTGTTAA

upper sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT4G17270.1 (Arabidopsis thaliana), 3'ss of exon 10
----------------------------gtataa--aagaaaagactctggattaataattttcattagcaatctttaacagt-atcctgaattgaactgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTGCCCTGGAACCTAGAGACCGGCCATGAGTGTGCTTTCTGTTGAATGTGTA
                            |||| |  |   || |  ||||  |       |   |  ||     | ||    | || |     ||   |||  ||||||| ||   |||||| |||||||||||||| ||||||||||| |||||   |||  | |   |||| |   | ||||  |||          |   |  
gtataggacttgtgttatatgaagccttgtatcaccagagaatggatctgattctcaccgtaaaacgagtttcttatatttatgattcatgtctgttatgtggcagAGGACGAGAGGTTTGACGCAGACAAAGCTCAGGTTGTGAGAGAGATTGCAAACCTTAAGCTGCGAGAGCTTGCTTGAGCATGCACATATACACAGAAGCT

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|30129996|gb|CB915335.1|CB915335
EST:     AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAG                         AGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
genomic: AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAGgtataaaaga ... actgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
EST: gi|30125722|gb|CB911061.1|CB911061
EST:     AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAG                         AGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
genomic: AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAGgtataaaaga ... actgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
EST: gi|30136804|gb|CB922142.1|CB922142
EST:     AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAG                         AGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
genomic: AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAGgtataaaaga ... actgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
EST: gi|110397538|gb|EC963286.1|EC963286
EST:     AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAG                         AGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
genomic: AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAGgtataaaaga ... actgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
EST: gi|110381120|gb|EC946437.1|EC946437
EST:     AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAG                         AGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
genomic: AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAGgtataaaaga ... actgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
EST: gi|110724431|gb|EE100255.1|EE100255
EST:     AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAG                         AGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG
genomic: AAATAAAAGCAAGCTTCTTCGACTGTTTGCTGATTTCAAAACCGAGAAAGgtataaaaga ... actgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattaataattttcattagcaatctttaacagtatcctgaattgaactgtcacagAGGATGAACAGTTTGAGGCAGACAAAGCTCAAGTTGTGAGAGAAATTGCTGCCCTGGAACCTAGAGACCGGCCATGAGTGTGCTTTCTGTTGAATGTGTA
                       ctttaac  putative branch site (score: 3)
     ataattttcatta  TA-rich tract