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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatactgaaacagaataattgctttgattatatcatttgttaatgggctcattttttcctggttatttttccaattgttattctaaaagtgaaatggtcacttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA

Basic information

species Vitis vinifera
transcript Vv18s0076g00260.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g65330.2 (Oryza sativa), 3'ss of exon 2
----------------------gtgaatactgaaacagaataattgctttgattatatcatttgttaatgggctcattttttcctggttatttttccaat----tgttattct-aaaagtgaaatggtcacttc-------atttt--ccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
                       || | | |  ||     | | |||      ||| ||||||| ||      |   |   |  |||| || |   ||||    | || | || |||  || | |  |  ||||        ||||    | || || |||||||||  ||||| | ||||||  |||||| || || ||||| || || || || |||||||||||||| |||||||| || |||||||| ||
gttagcattgatctcactgcttctgcaaattataaacatgtgactgcacattctat-tcatttgctagaaatatgtatacatgatggt-atatcaacaatatcgtattgtgcttaaagatgtactattttcttctattgaagttttggttatttctgacagGGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAA

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G046846_T01 (Zea mays), 3'ss of exon 3
--------------------gtgaatactgaaacagaataattgctttgattatatcatt-tgttaatgggctcattttttcctggttattt-------------ttccaattgttattctaaaagtgaaatggtc--acttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
                         |  | ||  | || |||||  |  |  || |  || | ||| |   ||    |   ||||||||| |             ||| | ||||| || ||    || | |   |  |  |  || |    |     |||||||||  ||||| | || |||  |||||| || || ||||| ||||| || || |||||||||||||||||||||||||| |||||||| ||
gttagtgaataatctctgattctttttataaactataacaattgtctgaaccatttgtttattttatttatctagcatcaacctggttatatagaagaaatgtacttcaacttgtttttatatgcttgtagttacctgaagtttttatttggtc-caacagGGAAGAGTTGAAAGTGTTCTCTACAGAAGTTGTTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCACAACTTGGACCGCTACTTTGATAA

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G077621_T01 (Zea mays), 3'ss of exon 2
--------------------gtgaatactgaa--acagaataattgctt--tgattatatcatttgttaatgggctcattttttcctggttatttt--tccaattgttattctaaaagtgaaa-tggtcacttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
                     | |  |   ||  |  |  |||||  |   || || |      |||||      ||| | | |   |   | | |  |     | ||||| | | | |||||    |  ||| |||    ||||    |||||||||  |  || | ||  |   ||| ||  | || ||||| || || || || |||||||||||||| ||||||||||| |||||||| ||
gtttgtgcttgtgttcacttcttatcatgtaattatggcctaatttatccatgcttgtcgtgcgtgttaccctattcaatatgtatggaaaactgtattgtgccttttatttttatattgaaaacaataccttaattagttaattccatcagGGAAGAGTTAGAAGTATTCACAAAAGAGGTCATTCGCTTTGGAAACCGTTGCAAGGATCCTCAGTGGCATAACTTGGACCGCTACTTTGAAAA

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G148773_T02 (Zea mays), 3'ss of exon 2
gtgaatactgaaacagaataattgctttgattatatcatttgttaatgggctcattttttcctggttatttttccaattgttattctaaaagtgaaatggtcacttcattttccaatta---tggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
                     |||| | ||||   || |||   ||    | |   |  |   |  |  |    |  | | | |||      |    |||| |||  | |||    ||       |||||||||  ||||| | ||||||  |||||| || || ||||| ||| | || || ||||||||||||||||| ||| |||| |||||||| ||
--------------------cttgcctcgatttattcctttcccaa---acccggctcatgtggaatcctccaacgctgggtcttcc-----ttttttggttactgaagtttttgtttggtccaacagGGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAATTGTTGCAAGGATCCTCAGTGGCACAATTTGAACCGCTACTTTGATAA

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 2
----------------------------gtgaatactgaaacagaataattgctt-tgattatatcatttgttaatgggctcattttttcctggttatttt--tccaattgttattctaaaagtgaaa-tggtcacttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
                            || | || ||    |   |||||     |  || |      |||||      ||| | | |   |   | | |  |     | ||||| | | | |||||    |  ||| |||    ||||    ||||||| |  |  || | ||| |   ||| ||  | || ||||| ||||| || || |||||||||||||| ||||||||| | |||||||| ||
gtttgtgcttgtgttcacttcttatcatgtaatta-tggcctaatttaattatccattcttgtcgtgcgtgttaccctattcaatatgtatggaaaactgtagtgtgccttttatttttatattgaaaacaataccttaattagttaattccatcagGGAAAAGTTAGAAGTATTTACAAAAGAGGTCATTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCATAACTTGGACTGCTACTTTGAAAA

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G36210.1 (Glycine max), 3'ss of exon 5
gtgaatactgaaacagaataattgctttgattatatcatttgttaatgggctcattttttcctgg---ttatttt-tccaattgttattctaaaagtgaaatggtcacttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
        |     |  ||   |  ||| || ||   | ||  ||     |||  |||    |||   ||||||| | ||  |  || | |     | || |  |||||   || | |  || || ||| |||||| ||||||| |||||||| ||||| || |||||||| ||||| |||||||||||||| ||||||||| |||| || || ||||||||
-------gtaggttatcatggatattttcatgat-caacttagtagcattctccctttgatttggagtttattttcttcagctactactgtgct--taaagttttcactatcttgtactgttttgacagAGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G31400.1 (Glycine max), 3'ss of exon 5
----gtgaatactgaaacaga-ataattgctttgattatat----catttgttaatgggctcattttttcctggttatttttccaattgttattctaaaagtgaaatggtcacttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
    || |  |  || |     || ||    ||  |   ||    | |||| |   | ||| ||||| | |  | || |  |    ||    || | |   |   |||  || ||| | | |   || |  ||| |||||  ||||||| |||||||| ||||| || |||||||| ||||| |||||||||||||| ||||||||| |||| || || ||||||||
gtaggttatcatcgatattttcatgatcaacttagtagcattctccctttgatttggagcttattttcttc-agctactaatgtgcttaaagttttcactatcttatg-ccatttcttatacttctt-tcacagAGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA

upper sequence: Vv18s0076g00260.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G34320.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgaatactgaaacagaataattgctttgattatatcatttgttaatgggctcattttttcctggttat-ttttccaattgttattctaaaagtgaaatggtcacttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
                                 || || |||||  ||      || | |  || |  | ||||| ||||  || | |  |  | || ||     |  | ||      |||  |||||||||  |||  |||||||||||||| ||||| |||||||||||||| || || |||||||| |  |||||| |||| |||| |||||| | 
--------------------------------gtaacaattgtttgtgattgtgttctgtgttgatgctgttttctaatttgtagtttggagat-aagtgacggttgaaattg-----tata-cagGGAAGAGTTGAGGATTTTTTCTGGAGAGGTGGTGCGTTTTGGGAATCGTTGCAAGGATCCTCAATACCACAACCTGGATCGTTTCTTTGACAG

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|352781806|gb|FQ469104.1|FQ469104
EST:     ATATCAAAAGATATGGAGGAACTCCTCAGAATTGCTGCAGCTGATAAAAG                         GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATG
genomic: ATATCAAAAGATATGGAGGAACTCCTCAGAATTGCTGCAGCTGATAAAAGgtgaatactg ... attatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATG
EST: gi|71887997|gb|DT037052.1|DT037052
EST:     ATATCAAAAGATATGGAGGAACTCCTCAGAATTGCTGCAGCTGATAAAAG                         GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATG
genomic: ATATCAAAAGATATGGAGGAACTCCTCAGAATTGCTGCAGCTGATAAAAGgtgaatactg ... attatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATG
EST: gi|352778150|gb|FQ468812.1|FQ468812
EST:     ATATCAAAAGATATGGAGGAACTCCTCAGAATTGCTGCAGCTGATAAAAG                         GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATG
genomic: ATATCAAAAGATATGGAGGAACTCCTCAGAATTGCTGCAGCTGATAAAAGgtgaatactg ... attatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccaattgttattctaaaagtgaaatggtcacttcattttccaattatggcagGGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAA
             ttctaaa  putative branch site (score: 2)
     aattgttattctaaaa  TA-rich tract