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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