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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattattatctggttttttatctccattttccaaatctcaaaaccctcgaaaggtttctggttttcttcatgtttgtttcatttggtttgtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAATCATGCGACAGATTGCTTCCAGCATCACTTATTTGCCATGCATCGATGAA

Basic information

species Vitis vinifera
transcript Vv01s0010g02430.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g02430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G01350.1 (Glycine max), 3'ss of exon 4
gtaatattattatctggttttttatctccattttccaaat-ctcaaaaccctcgaaaggtttctggttttcttcatgtttgtttcatttggtttgtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAATCATGCGACAGATTGCTTCCAGCATCACTTATTTGCCATGCATCGATGAA
     |  | |   ||  |      ||  ||| ||    | |  |||  ||||    ||| | |   ||| |   | |||  ||  ||   |||  |  ||||| || |||||||| ||||||||||| ||||| ||||||||||||||||| || ||| | ||||||||||| || |||||||||||||||||| | ||||||
----aaacagtgcatgaatcccagactaaattatcttccttcataaactcctcccttggtgtttaagtttttcattcttttatttgttctttttaatctttcagAGTCTCAAGGGAAAAGAGTGACAAGGAGATCATGAGAGAGATACAAGCGATTATGAGGCAGATTGCTTCAAGTATCACTTATTTGCCATGCCTGGATGAA

upper sequence: Vv01s0010g02430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G37380.1 (Glycine max), 3'ss of exon 4
gtaatattatt-atctggttttttatctccattttccaaatctcaaaaccctcgaaaggtttctggtttt--cttcatgtttgtttcatttggtttgttta----ttcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAATCATGCGACAGATTGCTTCCAGCATCACTTATTTGCCATGCATCGATGAA
      ||||| |    ||   | ||| |    ||    ||||     || |  |||      ||||||   |||    ||| ||||||||| ||| ||||    ||||| || || ||||| ||||||||||| ||||| ||||||||||||||||| || ||| | ||||||||||| || |||||||||||||||||| | ||||||
------ttattcaaacagtgcctaatcccagacttaattatctt----cctttaaaactcccttggtttatgcttttcatttttttcatttgctttttttaatctttcagTGTCTCGAGGGAAAAGAGTGACAAGGAGATCATGAGAGAGATACAAGCCATTATGAGGCAGATTGCTTCAAGTATCACTTATTTGCCATGCCTGGATGAA

upper sequence: Vv01s0010g02430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G23270.1 (Glycine max), 3'ss of exon 3
gtaatattattatctggttttttatctccattttccaaatctcaaaac-cctcgaaaggtttctggttttcttcatgtttgtttcatttggtttgtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAATCATGCGACAGATTGCTTCCAGCATCACTTATTTGCCATGCATCGATGAA---------
                         ||  ||| ||    |   ||||| ||||    ||| | || ||||| |  | ||| |||  ||   |||  |  ||||| || | || ||| |||||||||||  |||| ||||||||||||| ||| || ||| | || |||||||| || ||||||||||| |||||| | ||||           
-------------------cccagactaaattatcttccttcaaaaactcctcccttggtgtttgtttttcattttttttattt-gttctttttaatctttcagtgtctaaatggaaaagAGTGACAAGAAGATCATGAGAGAGATACTAGCGATAATGAGGCATATTGCTTCAAGTATCACTTATTTTCCATGCCTGGATGGGACCAACCTT

upper sequence: Vv01s0010g02430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G25980.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatattattatctggttttttatctccattttccaaatctcaaaaccctcgaaaggtttctggttttcttca--tgtttgtttcatt-tggtttgtttat--------tcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAATCATGCGACAGATTGCTTCCAGCATCACTTATTTGCCATGCATCGATGAA
                     | |  |   | ||   | | |  | ||  ||| ||| ||  | ||||||||    | ||||||||||| || | | |||||        | || ||||| |||||||||||||| || ||||| ||||| ||||| ||||| || ||| ||||| ||||||| ||  | ||||| ||||| ||  | ||||||
--------------------gtcagttttttgtttttagtgttgatactttcgcaagtttgtttgttttctttgattctttgtttcattatgttatctttatggaactttttagTGTGTCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAA

upper sequence: Vv01s0010g02430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S219_74V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaatattattatctggttttttatctcca----ttttccaaatctcaaaaccctcgaaaggtttctggtttt-----cttcatgtttgtttc--atttggtt---tgtttatt---cagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAATCATGCGACAGATTGCTTCCAGCATCACTTATTTGCCATGCATCGATGAA
|||| ||  ||      ||  || |   ||    ||| |      | |  |      |  |||  |||   |      | | || || ||  |  ||||||     ||   ||    ||||||  | || |||||||||||||| || ||||||| |||||| || ||||||||||| || || ||  ||||  | || | | | ||   ||| || |||
gtaagatggttgcactcttacttttgctcaggtctttgctttgcattactatttctcagtggtcactgtgatcagcaacctaatattcgtgccgtatttggcgacgtgcaaatggaacagGGTCACTAGAGAGAAGAGTGACAAGGACATTATGACAGAGATTCAGGCAATCATGCGGCAAATCGCCGCCAGTGTAACATTTCTTCCCAACATTGAGGAA

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|349818496|gb|FQ403131.1|FQ403131
EST:     GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGG                         GGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
genomic: GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGGgtaatattat ... gtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
EST: gi|349818528|gb|FQ403163.1|FQ403163
EST:     GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGG                         GGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
genomic: GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGGgtaatattat ... gtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
EST: gi|349818475|gb|FQ403110.1|FQ403110
EST:     GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGG                         GGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
genomic: GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGGgtaatattat ... gtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
EST: gi|349818516|gb|FQ403151.1|FQ403151
EST:     GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGG                         GGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
genomic: GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGGgtaatattat ... gtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
EST: gi|349818494|gb|FQ403129.1|FQ403129
EST:     GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGG                         GGTGTCAAGGGAGAAGAGTGACAAAGGGATTATGAGAGAGATACAAGCAAT
genomic: GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGGgtaatattat ... gtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
EST: gi|349818530|gb|FQ403165.1|FQ403165
EST:     GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGG                         GGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
genomic: GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGGgtaatattat ... gtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
EST: gi|349818538|gb|FQ403173.1|FQ403173
EST:     GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGG                         GGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
genomic: GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGGgtaatattat ... gtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
EST: gi|349818492|gb|FQ403127.1|FQ403127
EST:     GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGG                         GGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT
genomic: GAGAGATGGAACTTCAGCATTGAAACCGATGGTGAAGTCGTTGAGAATGGgtaatattat ... gtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctcgaaaggtttctggttttcttcatgtttgtttcatttggtttgtttattcagGGTGTCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAATCATGCGACAGATTGCTTCCAGCATCACTTATTTGCCATGCATCGATGAA
                                          tttgttt  CT-rich tract
                                          tttgtttatt  TA-rich tract