Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgataaacaaagatatggtcagaacactaatttgagttcttggattcttaacttgatggttagctgcagcctgcaaccaaaatagatttcaggggtccaaccttgctgagaagtacattttatgtagaatggatagagcctaatgctttagttgtcattatgttggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC

Basic information

species Vitis vinifera
transcript Vv06s0004g06730.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os11g01340.2 (Oryza sativa), 3'ss of exon 6
gtactgataaacaaagatatggtcagaacactaatttgagttcttggattcttaacttgatggttagctgcagcctgcaaccaaaatagatttcaggggtccaaccttgctgagaagtacattttatgtagaatggatagagcctaatgctttagttgtcattatgttggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC
                                                                           |   | ||   || | |||     ||  ||  |       | ||  || |   || ||   |  ||   ||  |||  |  | |    |||           |||||||||||||| || || || || || |||||||| ||||| ||||| || ||| | |||||||||||||||||||||||||||||||| || || || |
---------------------------------------------------------------------------tatgagcactctatacttcc----tctcactctatacttcattaagttctgcttacaa-acactgaaaatagggctgaacatctggcaatgaccactatttgcagGAATGGAGCTACCTCCGCGGTGGCCTGACAACGGTGGATCGGGACTACGGGTGGATCAACAACATCCACCATGACATTGGCACCCATGTCATCCACCACC

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os12g01370.1 (Oryza sativa), 3'ss of exon 6
---------------gtactgat-aaacaaagatatggtcagaacactaatttgagttcttggattcttaacttgatg-gttagctgcagcctgcaaccaaaatagatttcaggggtccaaccttgctgagaagtacattttatgtagaatggatagagcctaatgctttagttgtcattatgttggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC
               ||| ||||   |  |   | |   ||||| |  |   |||    |||      ||  ||  || ||| | ||||||||   | ||   || | |||     ||  ||  |       | ||  || |   || ||   |  ||   ||  |||  |  | |    |||           |||||||||||||| || || || || || |||||||| ||||| ||||| || ||| | |||||||||||||||||||||||||||||||| || || || |
gtatatcttttttctgtattgattggatcatagtttttccagaataa-agcatgaaaagttg---ctgtaggttattgagttgggtgcagcctatgagcactctatacttcc----tctcactctatacttcattaagttctgcttacaa-acactgaaaatagggctgaacatctggcaatgaccactatttgcagGAATGGAGCTACCTCCGCGGTGGCCTGACAACGGTGGATCGGGACTACGGGTGGATCAACAACATCCACCATGACATTGGCACCCATGTCATCCACCACC

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA18G06950.1 (Glycine max), 3'ss of exon 6
gtactgataaacaaagatatggtcagaacactaatttgagttcttggattcttaacttgatggttagctgcagcctgcaaccaaaatagatttcaggggtccaaccttgctgagaagtacattttatgtagaatggatagagcctaatgctttagttgtcattatgt-tggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC
                                                                     | ||  |  |   |||| | ||||     || ||   ||||         |||  |    |  |  ||||||  || |  |  |  |  ||  | | | ||  ||   |||||||||||| |||||| | || || || ||||| || ||||| |||||||| ||| | |||||||| |||||||||||||||||||||||||| |||||  
-------------------------------------------------------------------tggtagtttcaacataaaacatattt---atgtgcagttttgc---------catccttcaaaaga-agatagaaacttactccatgttactctgtctatatgtaatttcacaGGAATGGAGTTATCTAAGGGGTGGTCTTACAACAGTAGATCGCGACTATGGTTGGATCAACAACATTCACCATGACATTGGCACCCATGTTATCCATCAC-

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G37350.2 (Glycine max), 3'ss of exon 6
gtactgataaacaaagatatggtcagaacactaatttgagttcttggattcttaacttgatggttagctgcagcctgcaaccaaaatagatttcaggggtccaaccttgctgagaagtacattttatgtagaatggatagagcctaatgctttagttgtcattatgttggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC
                                                                 | |   | |   |||| || | ||  |     |   ||||       | | ||     || | | |    |  | | |    || ||| || ||     |      ||||| ||||||||||| ||| || |||| || || ||||| || |||||||||||||| ||| | || ||||| |||||||||||||||||||||||||| || ||||
-----------------------------------------------------------------aaccttacct--caacaaagaaagtgtgataagtggcaac-------acacgtgttgcttttttggcccagcaataacacg-tgtttttgtggt----gtacaaaaatgga-cagGAATGGAGTTATTTAAGAGGTGGTCTCACAACTGTGGATCGTGACTATGGTTGGATCAATAACATTCACCATGACATTGGCACCCATGTTATTCACCATC

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G27190.1 (Glycine max), 3'ss of exon 6
gtactgataaacaaagatatggtcagaacactaatttgagttcttggattcttaacttgatggttagctgcagcctgcaaccaaaatagatttcaggggtccaaccttgctgagaagtacattttatgtagaatggatagagcctaatgctttagttgtcattatgttggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC
                                                           || ||||| | ||      || ||| |||    | | | | | ||  ||||         | |  |    ||||  ||||||  ||     ||    ||||  |||||   |     |||||||||||  |||||| | || || || ||||| || |||||||||||||| ||| | |||||||| ||||||||||||||||||||||| || ||||| |
-----------------------------------------------------------attgttagtttcaa---ataaacaacata---cttatgtg-caaattttgc---------cttccttcaaagaaaagatagaaacttcatgttactctgtc--tatgtaatttc---acagGAATGGACTTATCTAAGGGGTGGTCTTACAACCGTAGATCGTGACTATGGTTGGATCAACAACATTCACCATGACATTGGCACCCATGTCATCCATCACC

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G39230.1 (Glycine max), 3'ss of exon 6
gtactgataaacaaagatatggtcagaacactaatttgagttcttggattcttaacttgatggttagctgcagcctgcaaccaaaatagatttcaggggtccaaccttgctgagaagtacattttatgtagaatggatagagcctaatgctttagttgtcattatgttggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC
                                                                || ||     |  |||  ||| |    |    ||   ||  | || ||       ||||||  |   |    |||   |    || ||| || ||     |  |   ||||| ||||||||||| ||| || |||| || || || || || |||||||||||||| ||| | || ||||| |||||||||||||||||||||||||| || ||||
----------------------------------------------------------------taccttacctcaacaaagaaagtgtggtaagtggcaacacacgtgttg-------catttttggcccagca-ataacac---gtgtttttgtggt----gtactaaaatgga-cagGAATGGAGTTATTTAAGAGGTGGCCTCACCACTGTGGATCGTGACTATGGTTGGATCAATAACATTCACCATGACATTGGCACCCATGTTATCCACCATC

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|110379212|gb|EC944392.1|EC944392
EST:     ACTTGCATCACCATGGCTATGAGAAAAAACTTCCATGGTATCGGGGCAAG                         GAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGC
genomic: ACTTGCATCACCATGGCTATGAGCAAAAACTTCCATGGTATCGGGGCAAGgtactgataa ... tatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGC
EST: gi|110377424|gb|EC942487.1|EC942487
EST:     ACTTGCATCACCATGGCTATGAGAAAAAACTTCCATGGTATCGGGGCAAG                         GAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGC
genomic: ACTTGCATCACCATGGCTATGAGCAAAAACTTCCATGGTATCGGGGCAAGgtactgataa ... tatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtagaatggatagagcctaatgctttagttgtcattatgttggtatggaacagGAATGGAGCTATCTACGAGGAGGGCTAACAACGGTTGATCGTGACTATGGCTGGTTTAACAACATCCACCATGACATTGGCACCCATGTTATACATCATC
                gcctaat  putative branch site (score: 3)
                                   attatgtt  TA-rich tract