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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctccatgatcagacccaatcacttctcatctcatcatttatctgtgaatctgccttgtattgatttcattcttttgttgttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA

Basic information

species Vitis vinifera
transcript Vv15s0046g02420.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g47220.1 (Oryza sativa), 3'ss of exon 2
gtaa-gctccatgatcagacccaatcacttctcatctcatcatttatctgtgaatctgccttgtattgatttcattcttttgttgttc------ccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
 ||   ||  ||||| || |   |||| |  | |   ||| ||| | |  ||   ||   ||  |   | |   | |   ||   ||        || |||||||| ||||||||||| ||||||||||| ||||| ||||||||| | ||||||||| | || ||||| || || |||||||||| |||  | | |    
-tattactgtatgataagtctacatcattagtgaggacatgattgagcaatggcacttaattacaagcactaactcccgctgcaatttgctggttctgcagTGGATCTTCTGGGTTGGCCCCTTCATTGGCGCTGCCCTTGCTGCCATCTACCACCAGGTGGTCATCAGGGCAATTCCATTCAAGAGCAGGTCGTAACCTG

upper sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g44630.3 (Oryza sativa), 3'ss of exon 2
gtaagctccatgatcagacccaatcacttctcatctcatcatttatctgtgaatctgccttgtattgatttcattc---ttttgttgttc----ccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
 ||      |   |   | |  |  |    |      |  |   |   |   |   | |    | |  || | | |   ||||| | |        | |||||||| ||||||||||| |||||| |||| ||||| || |||||| | ||||||||| |  | ||||| || ||||||||||||| |||  | | ||   
-tacttagtagcttaccagcttactagcctttgctcaagaaaagagtagaagacacgacaaagagtttttccttacaaattttggtatctaaattttgcagTGGATCTTCTGGGTTGGTCCCTTCGTTGGCGCTGCCCTGGCTGCCATCTACCACCAGGTGATCATCAGGGCGATCCCATTCAAGAGCAGGTCTTAAGCCC

upper sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AC209208.3_FGT002 (Zea mays), 3'ss of exon 3
gtaagctccatgatcagacccaatcacttctcatctcatcatttatctgtgaatctgccttg-tattga----tttcattct--tttgttgttccctt-cagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
 ||     ||||     ||  ||| |    |  |     |||  || | | |  ||   ||| ||  ||    |    || |    | |  ||   || |||||||| |||||||| || ||||||||||| |||||||| |||||| | ||||||||| |  | |||||||||||||| ||||||| |||  | | |    
-tagatggcatgtattaact-aatgatcctttgttaatgcatgcatgtttaatcctctattggtaccgaggagtcgtgttataacctatgattgttttgcagTGGATCTTCTGGGTCGGCCCCTTCATTGGCGCTGCTCTGGCTGCCATCTACCACCAGGTGATCATCAGAGCCATCCCGTTCAAGAGCAGGTCTTAA----

upper sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G081843_T01 (Zea mays), 3'ss of exon 1
gtaagctccatgat--cagacccaatcacttctcatctcatcatttatctgtgaatc--tgccttgtattgatttcattcttttgttgttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
|| || | |||  |  |     | |||  |     ||||||  |    | | || |   || ||    |||  ||    || || || || |    ||||||| ||||||||||| |||||||| || ||||||||||| ||| | ||||||  | |  | ||||| ||| |||| ||||||| | | | ||||  | 
gtgagtttcattctggccatgtcgatcgatcgaattctcatgctgcggc-gcgagttcatgactgaccttggatttgaactattattattgc----agTGGATCTTCTGGGTTGGCCCCTTCATCGGTGCTGCTCTTGCCGCCATCTACCACGTGGTCATCATCAGGGCCCTCCCCTTCAAGAGCCGTGACTGATTAT

upper sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G37730.1 (Glycine max), 3'ss of exon 3
gtaagctccatgatcagacccaatcacttctcatctcatcatttatctg--tgaatctgccttg--tattgatttcattcttttg---ttgttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
 |||      | |  |    ||    ||  ||||   |   | ||      |  || ||||||   || | || | ||| ||||    ||||    |  |||||||||||||||||||||| |||||||||||||| ||||||||  |||| ||||||||||| ||| |||||||||| |||||||| || || |  |   
-taaaacattttactaataacacattctaatcattaaactctataaaaaaatatatatgccttaaataataatgtaattttttttattttgtggtttatagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTGTATCACCAGATAGTCATCCGAGCCATCCCTTTCAAGACAAGGGCTTAGGCTC

upper sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G01860.1 (Glycine max), 3'ss of exon 3
------gtaagctccatgatcagacccaatcacttctcatctcatcatttatctgtgaatctgccttg-tattgatttcattcttt-tgttgttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
       |   ||   |  |     |   | | ||   | | ||      || | |  || ||| ||  || | || | ||| ||| | || |    | ||||||||||||||||||||||| |||||||||||||| ||||||||  |||| ||||||||||| ||| ||||||| || |||||||| || || |  |   
aaacatttttactaatttgtgcattctcgttattttaaaccccacagaagatatat--atatgctttaataataatgtaattttttattttatggtttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTGTATCACCAGATAGTCATCCGAGCCATTCCTTTCAAGACAAGGGCTTAGGCTC

upper sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 3
gtaagctccatgatcagacccaatcacttct-catctcatcatttatctgtgaatctgccttgtattgatttcattcttttg-ttgttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
         ||   ||   ||  |||||| |    ||| |  ||| |   ||||  || |||   || | |   |  ||||  ||||  | | ||||||||||||||||||||||| |||||||||||||| ||||| || || || ||||||||||| ||| |||| || ||||||||||| || |  | |  ||
-------gtatatacatgtcctttcacttatgtgcctctttgttt-tgcatgaaagtgactttatttaactgtttaattttaattgtggcttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCAGCTTTATATCACCAGATAGTGATCCGAGCAATTCCATTCAAGACAAGGGGTTAATCAA

upper sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G42950.1 (Glycine max), 3'ss of exon 3
gtaagctccatgatcagacccaatcacttct-catctcatcatttatctgtgaatctgcct-tgtattgatttcattcttttgttgttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
           |   |   ||  |||||| |    ||| |  ||| |||   ||    | | | ||  | ||| ||| |  | |||   | | ||||||||||||||||||||||| |||||||||||||| ||||||||  | || ||||||||||| ||| |||| || || |||||||| || |  | |  ||
-----------gtatatgtcctttcacttatgtgcctctttgtttttcttacaagtgacttatttaacggtttaattttgattttgg--cttacagTGGATTTTCTGGGTTGGACCTTTCATTGGAGCTGCCCTTGCTGCTGTATATCACCAGATAGTGATCCGAGCAATTCCTTTCAAGACAAGGGGTTAACCAA

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|110698200|gb|EE075479.1|EE075479
EST:     GTCTGGGGGCCGCCATCGTCTACAACAAAGAGCATGCCTGGGATGACATG                         TGGATTTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTG
genomic: GTCTGGGGGCCGCCATCATCTACAACAGAGAGCATGCCTGGGATGACATGgtaagctcca ... ttcccttcagTGGATTTT-CTGGGTTGGACCCTTCATTGGAGCTGCTCTTG
EST: gi|87585869|gb|DY474409.1|DY474409
EST:     GTCTGGGGGCCGCCATCGTCTACAACAAAGAGCATGCCTGGGATGACATG                         TGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTAC
genomic: GTCTGGGGGCCGCCATCATCTACAACAGAGAGCATGCCTGGGATGACATGgtaagctcca ... ttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTAC
EST: gi|110702789|gb|EE079065.1|EE079065
EST:     GTCTGGGGGCCGCCATCGTCTACCACAAAGAGCATGCCTGGGATGACATG                         TGGATTTTCTGGG
genomic: GTCTGGGGGCCGCCATCATCTACAACAGAGAGCATGCCTGGGATGACATGgtaagctcca ... ttcccttcagTGGATTTTCTGGG
EST: gi|110357108|gb|EC920423.1|EC920423
EST:     GTCTGGGGGCCGCCATCATCTACAACAGAGAGCATGCCTGGGATGACATG                         TGGATTTTCTG
genomic: GTCTGGGGGCCGCCATCATCTACAACAGAGAGCATGCCTGGGATGACATGgtaagctcca ... ttcccttcagTGGATTTTCTG
EST: gi|34544388|gb|CF512620.1|CF512620
EST:     GTCTGGGGGCCGCCATCGTCTACAACAAAGAGCATGCCTGGGATGACATG                         TGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTAC
genomic: GTCTGGGGGCCGCCATCATCTACAACAGAGAGCATGCCTGGGATGACATGgtaagctcca ... ttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTAC
EST: gi|34546377|gb|CF514609.1|CF514609
EST:     GTCTGGGGGCCGCCATCGTCTACAACAAAGAGCATGCCTGGGATGACATG                         TGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTAC
genomic: GTCTGGGGGCCGCCATCATCTACAACAGAGAGCATGCCTGGGATGACATGgtaagctcca ... ttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttatctgtgaatctgccttgtattgatttcattcttttgttgttcccttcagTGGATTTTCTGGGTTGGACCCTTCATTGGAGCTGCTCTTGCTGCCTTGTACCACCAGATAGTAATCAGAGCCATCCCATTCAAGACCAGAGCCTGAGAAA
                       tattgat  putative branch site (score: 3)
                             tttcattcttttgttg  CT-rich tract
                       tattgattt  TA-rich tract