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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcatttttctccatttaatatctttaattcaagctcatggtgtttatttacttctttgactatagatagtctactcaattttatttccttaattcagATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC

Basic information

species Vitis vinifera
transcript Vv03s0063g02450.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 3'ss of exon 10
--gtagcatttttctccatttaatatctttaattcaagctcatggtgtttatttacttctttgactatagatagtctactcaattttatttccttaattcagATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC
   | | || |     || ||    |   |     |  |  | | |    | | | || |     | ||   | | ||||   ||  | |     ||  |||||||| || ||| |||| | |||||| ||||| || |||||||| || ||||| ||||| ||||| ||||||||||| || ||||| ||||| |||||||
ttttgggatgtagaaacagtttccctgccttgcataccccaaagttacacaatgaattatgaatttctaatgaatttactatgttccaatcttgcaa--cagATACTTCACTTTTTGGGAAATGAAGGTCCAAAGACATCAGATCCTAGTAAATACATACGTTATATATATAACAGAGTGATACTTGAAAATGCTACTGTTC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G036034_T01 (Zea mays), 3'ss of exon 10
--gtagcatttttctccatttaa-tatct-ttaattcaagctcatggt-gtttatttacttctttgactatagatagtctactcaattttatttccttaattcagATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC
  ||| |||| |   | | | || ||||| || ||  |      | || | | |  |  ||  || | | ||   |   | ||   ||||| | |       |||||||| || ||| |||| | |||||| |||||||| ||||||||||| ||||| ||||| ||||| || || || || || ||||| ||||| || ||||
atgtatcattatggactagtaaaatatctattcatggactactttagtaggtaaggtgatttcttcattgtaatcaaattgct---ttttactcctgcgg--cagATACTTCACTTTTTGGGAAATGAAGGCCCAAAAACATCAGATCCCAGTAAATACATACGCTATATATACAATAGGGTGATACTTGAAAATGCTACAGTTC

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA11G12610.1 (Glycine max), 3'ss of exon 10
gtagcatttttctccatttaatatctttaattcaagctcatggtgtttatt---tacttctttgactatagatagtctactcaattttatttccttaattcagATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC
                  || ||  |||  ||    |   ||   |||| |   |     | ||  | |  ||  | |  | | |||| | ||  |   | ||||||| || || |||||  ||||||| |||||||| || || |||||||||||||| || ||||| ||||||||||||  |||||||||||| |||||| 
-----------------gtagtaattttggttttgtcctttgccatttactttgtgtgcttctggatttttatcttttggtaatttttctctctatcccttagATACTGCACTTCCTGGGAGTTGAAGGACCAAAAACTTCTGACCCCAGCAAATATATTCGTTATATTTATAACAGAGTACATCTTGAGAATGCGACTGTTA

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 10
gtagcatttttctccatttaatatctttaattcaagctcatggtgtttatttacttctttgactatagatagtctactcaattttatttccttaattcagATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC
|||| | ||||     |||    | |   ||| |    | | |||    | |   | |||  || ||       |  | | |||| | ||  |   | ||||||| || || |||||  ||||||| |||||||| || || |||||||||||||| || ||||| ||||||||||||  |||||||||||| |||||| 
gtagtaattttggt--tttgtcctttgccattta----ctttgtgcgcttctggatttttatctttaa-----ttgttaatttttctctctatcccttagATACTGCACTTCCTGGGAGTTGAAGGACCAAAAACTTCTGACCCCAGCAAATATATTCGTTATATTTATAACAGAGTACATCTTGAGAATGCGACTGTTA

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA04G01470.1 (Glycine max), 3'ss of exon 10
gtagcatttt---tctccatttaatatctttaattcaa-gctcatggtgtttatttacttctttgactatagatagtctact--caattttatttccttaattc---agATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC
|||  | ||      |    ||    |   | |||||  | |  ||   ||  |||   |      ||| |  | |  |  |  | ||||| || || |  | |   ||||||| || || ||||| |||||||| |||||||| ||||| || ||||||||||| || || || ||||| ||||||  |||||||||||||| |||| 
gtattacttccgacttgtgcttgtgcttcattattcactgtttgtgcatttcttttgtctggaattctacatcttggttgttaacgattttgttccccttgtactgtagATACTTCACTTCCTGGGAATTGAAGGACCAAAAACATCAGACCCGAGCAAATATATCCGTTACATTTATAATAGAGTACATCTTGAGAATGCAATTGTTA

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 10
gtagcatttttctccatttaatatctttaattcaa-gctcatggtgtttatttacttctttgactatagatagtctactca--attttatttccttaattc---agATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC
   | |||  |  |   ||    |   | |||||  | |  ||   ||  |||   |      ||| |  | |  |  | |  ||||| || || |  | |   ||||||| || || ||||| || ||||| |||||||| ||||| || ||||||||||| || || || ||||| ||||||  |||||||||||||| |||| 
---gtattacttccagcttgtgcttcattattcactgtttgtgcatttcttttgtctggaattctacatcttggttgttaaccattttgttccccttgtactgtagATACTTCACTTCCTGGGAATCGAAGGACCAAAAACATCAGACCCGAGCAAATATATTCGTTACATTTATAATAGAGTACATCTTGAGAATGCAATTGTTA

upper sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 3'ss of exon 9
gtagcatttttctccatttaatatctttaattcaagctcatggtgtttatttacttctttgactatagatagtctactcaattttatttccttaattcagATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC
                       |  ||| | ||   ||    | |    || ||  |   |   ||  |  | |    |  ||||||  |  |   ||||| || ||||||||||| ||||| ||||| || ||||||||||| ||||| |||||||| ||||| |||||  | ||   ||| || || || ||||| |
----------------------gtaattattccatcatcc--atctggggttgctattaaaaacttatgtgttattgaaatgtttattctcgca---cagATCCTTCATTTTCTGGGAATTGAGGGGCCTAACACCTCAGATCCAAGCAAGTATATACGATATATATATAATCGTGTGCATCTAGAAAACGCCACTGTCC

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|110359101|gb|EC920028.1|EC920028
EST:     ATCTGTGTGAATTTATTGAAGATTGTGAGTTCACCTATCTTTCAACACAG                         ATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAA
genomic: ATCTGTGTGAATTTATTGAAGATTGTGAGTTCACCTATCTTTCAACACAGgtagcatttt ... cttaattcagATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatttacttctttgactatagatagtctactcaattttatttccttaattcagATACTCCATTTTCTGGGGATTGAAGGGCCAAAAACCTCAGATCCCAGCAAATATATACGGTATATCTATAACAGAGTAATTCTTGAGAATGCAACTGTTC
                                            ccttaat  putative branch site (score: 4)
                                    ttttatttcctt  CT-rich tract
                                  aattttatttccttaa  TA-rich tract