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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA

Basic information

species Vitis vinifera
transcript Vv17s0000g01550.t01
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttattttt--ttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
              ||| || | ||| |  | |  |  |    |  ||   |||   || ||   |  |   |  |||| | ||| ||  |        ||||||||||| ||||| ||||| ||||| || || || || |||||||| || |||||||||||||||||  | ||||||||||| 
--------------gta-ctccctttatagagctatgcagagttccagattgttcacatcttgaatactccttttgctgatatctgattctg------acagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 22
gttatcattgataagtagcttcttttttctatcccttgatctctat-agtgggttgttatttttttttttctcag----ctggtttctcatctttc-ttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA----------------
                        | || ||     ||||  |||| |||   | ||| | |||||   | |  |    |||     |  | |  | ||    ||||||||||| || || ||||||| |||||| || || || ||||| || || ||||||||||| |||||| | || ||||||||                 
-----------------------gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGGTAAGTAAATTGTAAT

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 22
gttatcattgataagtagcttcttttttctatcccttgatctctat-agtgggttgttatttttt----tttttctcagctggtttctcatctttc-ttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
                        | || ||     ||||  |||| |||   | ||| | ||||    ||||   || |||     |  | |  | ||    ||||||||||| || || ||||||| |||||| || || || ||||| || || ||||||||||| |||||| | || |||||||| 
-----------------------gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttc-ttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
       |   |  | | | |  |  |  |     ||| || | ||   | ||  |||||  |||        |||| ||||    || |   | |  ||||||||||||||||| || || |||||||| || ||||| |||||||| || |||||| ||||||||||| | || |||||||| 
------gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattacttt--------gctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
                        | || | || | | ||    | | ||    | |    |  | | ||   |||      |  | | |    || ||||||||||| || || ||||||||||| ||||| ||||||||||| || |||||||| || || |||||| ||||| | ||||| 
-----------------------gtattatttcacctaatgggca-actgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 13
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggt--tgttatttttttttttctcag--ctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
                             |||   |||| ||     |    |  ||  |||   || | |||||   ||      |  |   | |  || ||||||||||| || || ||||||||||| ||||| ||||||||||| || |||||||| || || |||||| ||||| | ||||| 
----------------------------gtattatttgacctagcgggcaactgatgagattcacttgtgtctcaagcctaaccagtggttcgtttactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCCCCCAGTGTTATATTTATCGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G354532_T01 (Zea mays), 3'ss of exon 1
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
                             |||   || | ||    | ||||    |  |    ||        ||  | |||||    |       ||||||||||| || || ||||||||||| ||||| ||||||||||| || |||||||| || || |||||| ||||| | ||||| 
----------------------------gtattatttcacct----aatgggcaactgatgagattc------actactgtctcaagGCTAAC----CAGTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 2
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
                        | || | || | | ||    | | ||    | |    |  | | ||   |||      |  | | |    || ||||||||||| || || ||||||||||| ||||  ||||||||||| || |||||||| || || |||||| ||||| | ||||| 
-----------------------gtattatttcacctaatgggca-actgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGTTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G170037_T01 (Zea mays), 3'ss of exon 4
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTT-GTGGATGAA---------------
                        | || | || | | ||    | | ||    | |    |  | | ||   |||      |  | | |    || ||||||||||| || || ||||||||||| |||||  |||||||||| || |||||||| || || |||||| |||||  | |||||                
-----------------------gtattatttcacctaatgggca-actgatgagattcactactgtctcaaggctaaccagtggtttgttaactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTATTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTTATTGATGAGGTATGCAAGCACACA

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 20
gttatcattgataagtagcttcttttttctatcccttgatctctatagtgggttgttatttttttttttct-cagctggttt-ctcatct-ttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
       || | |  |  ||   | |   | |   ||||| ||         || ||| |||  | |   | || ||  ||| ||   || || ||| | ||||||||||| ||||| ||||| |||||||| || |||||||| || || ||||||||| | ||||||||| ||||||| ||||| 
------gttaa-atttgtctctctctaagtgtatattgatttcacct-----ttattagtttgctgtgcatacaactcattttcttgcctctttttgcttcagTGGTTTGGTGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 18
gttatcattgataagtagcttcttttttc--tatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
         | ||| |   | | | |     | |   |||||||| |   |   | |||   | |   | ||    |  |||  |   | |  ||| | ||||||||||| ||||| ||||| |||||||| || |||||||| || || ||||||||| | ||||||||| ||||||| ||||| 
---------gttaaatttgtccctctccaagtgtatattgatctc-acctttattagtttgctgtgcatatcaactcatgttcttgcccctctttgcttcagTGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 5
gttatcattgataagtagcttc-ttttttctatcccttgatctctatagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
       || |  | | |||||  |   | |||       |||||    |  |||  |  ||  |||| |||  | |  |||| ||| || |||    ||||||||||| ||||| || |||||||| || || ||||| || || || ||||||||||||||||| ||  ||||||| || |||
------gttaa--atttgcttcactgggtttattttaatgtctctgctatcagttagttgttcattttatctgtgttcttttcccattttgctt----cagTGGTTTGGTGAGGGTGAAAAGTATGTCAAAGCTGTTTTTTCCCTGGCTAGTAAAATTGCTCCTAGCGTGATATTTGTTGACGAA

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|37186767|gb|CF606120.1|CF606120
EST:     AAGCTGGTGCAAACTTCATCAATATTTCAATGTCAAGCATCACATCTAAG                         TGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGT
genomic: AAGCTGGTGCAAACTTCATCAATATTTCAATGTCAAGCATCACATCTAAGgttatcattg ... cttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGT
EST: gi|110720420|gb|EE096327.1|EE096327
EST:     AAGCTGGTGCAAACTTCATCAATATTTCAATGTCAAGCATCACATCTAAG                         TGGTTTGGAGAGGGTGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGT
genomic: AAGCTGGTGCAAACTTCATCAATATTTCAATGTCAAGCATCACATCTAAGgttatcattg ... cttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGT
EST: gi|110711745|gb|EE088578.1|EE088578
EST:     AGCTGGTGCAAACTTCATCAATATTTCAATGTNCA-GCATCACATCTAAN                         TGGTTTGGGAGAGGT-GAGAAATATGTGAAGGCCGTTTTCTCACT-GCCAG
genomic: AGCTGGTGCAAACTTCATCAATATTTCAATGT-CAAGCATCACATCTAAGgttatcattg ... cttgttgcagTGGTTTGG-AGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtgggttgttatttttttttttctcagctggtttctcatctttcttgttgcagTGGTTTGGAGAGGGCGAGAAGTATGTGAAGGCCGTTTTCTCACTTGCCAGTAAAATTGCTCCTAGTGTTGTATTTGTGGATGAA
             tttttttttttctcag  CT-rich tract
       ttgttatttttttttt  TA-rich tract