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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG

Basic information

species Vitis vinifera
transcript Vv07s0005g00200.t01
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatat----tgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
     ||    | | | |  | |   |    || ||    |||    ||   | |||||  || |     | |||||||    | ||  ||||||||||| || || ||||||||||||||||||||||| || || || || |||||||| ||||||||  ||||||| || |||
----gtactccctttatagagcta--tgcagagttccagattgt---tcacatcttgaa--tactccttttgctgatatctgattctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 22
gtaaatatgtgcatcaaaatggtg-actatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
    ||    ||||| ||||  || | ||   || | |    || |     || ||   |||  |      |  |  |  | ||| ||||||||||| ||||||||||||||||| |||||||| |||||  |||| |||||||| || || || ||| | ||  |||| |||
--gtatgatggcatccaaattttgcattaatgaggtgtacagtgtactatgtgattctcaaagctaaatgctgttttttctactttcagTGGTTTGGCGAAGGAGAGAAATATGTAAAAGCTGTTTTCTCATTAGCAAGTAAAATAGCTCCAAGCGTTATATTCATTGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 22
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctg-atattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG----------------
       | |    | ||||| |  ||||    |  |  |||     |    |||||   || |   ||||  || |   |     ||||||||||| ||||||||||| | ||| |||||||| || || || || || |||||||| || |||||| |||| || || |||                
------gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGGTAAGTAAATTGTAAT

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 22
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctg-atattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
       | |    | ||||| |  ||||    |  |  |||     |    |||||   || |   ||||  || |   |     ||||||||||| ||||||||||| | ||| |||||||| || || || || || |||||||| || |||||| |||| || || |||
------gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G126453_T02 (Zea mays), 3'ss of exon 7
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
          | || |        | |  ||| ||          | |  ||| |  |   ||          || ||   ||| ||||||||||| ||||| ||||| ||||| || ||||| ||||| ||||| |||||||| ||||| |||||| | ||| |||| |||
----------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgtta--actttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G354532_T01 (Zea mays), 3'ss of exon 1
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
                            |     |     |     |     |  ||| | |   |    ||   |   |     ||||||||||| ||||| ||||| ||||| || ||||| ||||| ||||| |||||||| ||||| |||||| | ||| |||| |||
---------------------------gtattatttcacctaatgggcaac-tgatgagattcactactgtctcaagGCTAAC--CAGTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 2
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
          | || |        | |  ||| ||          | |  ||| |  |   ||          || ||   ||| ||||||||||| ||||| ||||| ||||| || | ||| ||||| ||||| |||||||| ||||| |||||| | ||| |||| |||
----------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgtta--actttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGTTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G170037_T01 (Zea mays), 3'ss of exon 4
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGT-TTTTGTTGACGAG---------------
          | || |        | |  ||| ||          | |  ||| |  |   ||          || ||   ||| ||||||||||| ||||| ||||| ||||| || ||| | ||||| ||||| |||||||| ||||| |||||| | |||| |||| |||               
----------gtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaaccagtggtttgtta--actttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTATTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTTATTGATGAGGTATGCAAGCACACA

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 13
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
|||  ||| || | | |   ||  |||    || | ||  |||       ||| |  |   ||           | |  | ||| ||||||||||| ||||| ||||| ||||| || ||||| ||||| ||||| |||||||| || || |||||| | ||| | || |||
gtat-tatttg-acctagcgggcaactgatgagat-tcacttg-------tgtctcaagcctaaccagtggttcgtt--tactttcagTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCCCCCAGTGTTATATTTATCGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gtaaatatgtgcatcaaaatggtgactatgcagctctct--tttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
    |  |||||| |   ||  | |  | |    |  |   |||| |   ||| ||       |  ||   | ||||  | |  |  ||||||||||| || ||||| |||||||| |||||||| || || || || || |||||| | ||||||||| |||| || || |||
--gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaacta-taacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 21
gtaaatatgt-gcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
|||   |||| | |    | |  |   | ||  |   |   ||| | |  |   |   || | |    | ||  |  | ||  |||||||||||||| ||||||||||| |||||||||||||| || |||||||| || |||||||| || |||||| ||||||||||||||
gtattaatgttgtaagttacttttttttgtggtgtatttccttgtatgcttcagtgacaagaaa---aatatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
--gtaaatat-gtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
   | ||||| ||  || |   |  |   | || |  ||    ||| | |  |   ||  || | |    ||||  |  | ||  |||||||||||||| ||||||||||||||||||||||| || || ||||| || || |||||||| || |||||| ||||||||||||||
gtatcaatattgtaaattactttttttgttgtgtatttcc---ttgtatgcttcagttacaagaaa---aacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgctt----gcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
     |||  |   |||| |    ||| |   |||||  | || |  |    ||     | ||  |||||   |  | ||  ||    |||||||||||| |||||||| |||||||||||||| || || ||||| || || |||||||| || |||||| |||||||||| |||
----gtattagttgcaaattta-aactgttttgctctactctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcct-gatattgctt-------gcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
     |||  |   |||| |    ||  |   |||||  |||| |  | |  |||     |||  |||||   | ||||||| ||       |||||||||||| |||||||| |||||||||||||| || || ||||| || || |||||||| || |||||| |||||||||| |||
----gtattagttgcaaattta-aacagttttgctctactttgta--tttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG

upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 3'ss of exon 21
gtaaatat-gtgcatcaaaatggtgactatgca-gctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
|||| | |  |  |   | ||| |  |  |  | ||| ||||||     |  |  ||    |  ||||   |  || | ||   |||||||||||||| || |||||||| || || |||||||| |||||  |||| || || ||||| || |||||  |||||||||| |||
gtaactctcataaagtgatatgatttccttttatgctttcttttaatgattgtactt---gaccattt---acactaa-atgctttgcagTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTCTTCTCCTTAGCGAGCAAGATTGCGCCAAGTGTCATTTTTGTTGATGAG

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|34547757|gb|CF515989.1|CF515989
EST:     AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAG                         TGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
genomic: AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatatgt ... ttgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
EST: gi|71854977|gb|DT004032.1|DT004032
EST:     AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAG                         TGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
genomic: AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatatgt ... ttgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
EST: gi|110727315|gb|EE103938.1|EE103938
EST:     GGCAG-TGGCAAATTT-ATCAACATATCAATGTCTAGTATCACTTCAAAG                         TGGTTTGGGGAAGGAAA-AAATATGGTCAAA
genomic: GGCAGGTG-CAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatatgt ... ttgcttgcagTGGTTTGGGGAAGGAGAGAAATATG-TCAAA
EST: gi|30134135|gb|CB919473.1|CB919473
EST:     AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAG                         TGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
genomic: AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatatgt ... ttgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
EST: gi|30130536|gb|CB915875.1|CB915875
EST:     AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAG                         TGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
genomic: AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatatgt ... ttgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
EST: gi|30125513|gb|CB910852.1|CB910852
EST:     AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAG                         TGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT
genomic: AGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatatgt ... ttgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG
                                     tcctgat  putative branch site (score: 3)
                ttgttttgaaaatatt  TA-rich tract