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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAATCAGCCACAGAACTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggcttattcttgtcatccatgataaattcttcgtttctatgtatcctttttagccttctaatactttactctctctcag

Basic information

species Vitis vinifera
transcript Vv06s0004g06730.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os12g01370.1 (Oryza sativa), 5'ss of exon 3
GAGAATCAGCCACAGAACTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggcttattcttgtcatc------catgataaattcttcgtttctat---gtatcctttttagccttctaatactttactctctctcag------
|||||||||||||||||| |||||||| ||||| |||||| | || || || || || |||  ||||||   |  ||  |||   ||| |      | |  ||| ||||||   ||| |     |||||       |||  | | ||  |||   |  ||       
GAGAATCAGCCACAGAACACACCATCAGAACCACGGTCATATCGAGAAGGACGAGTCCTGGCACCCGgtttgtcactccttcagatcacctcctctcttactaatttcttctcatctctcgcccatcctacaattgcttgcacttctcaacttcattccactcctag

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA11G27190.1 (Glycine max), 5'ss of exon 3
GAGAATCAGCCACAGAACTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaa-atggcttattcttgtcatccatgataaattcttcgtttctatgtatcctttttagcctt--ctaat---actttactctctctcag------------------------------------------------------------------------------
|||||| |||||||| ||||||||||| |||||||| |||||||| || |||||||||||||| ||||||  ||      ||    | ||  ||   ||  | ||  |||||     |  |||| | |  |   ||||   | || | | | |  ||                                                                               
GAGAATTAGCCACAGGACTCACCATCAGAACCATGGCCATGTTGAGAAGGATGAATCATGGGTTCCGgtattattatcagtttgcttaattaatttcaacatttttctttcttctcttaattttaatcagtagttaattagatttgattgtgttccaatagaagaaaaagggtaatctagagatgtgaacttcatgaagtggttcatgattatgtgcctttatgactttatgtcag

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA18G06950.1 (Glycine max), 5'ss of exon 3
-GAGAATCAGCCACAGAACTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaa-atggcttattcttgtcatccatgat-aaattcttcgtttctatgtatcctttttagccttctaatactttactctctctcag-------------------------------------------------------------------------------
 |||||| |||||||| ||||||||||| |||||||| |||||||| || |||||||||||||| ||||||  |       ||    | ||  ||    | ||| ||  |||||   ||   ||  |       ||  | ||   | | |  ||                                                                                
GGAGAATTAGCCACAGGACTCACCATCAGAACCATGGCCATGTTGAGAAGGATGAATCATGGGTTCCggtattactatgagtttgcttgattaatttccacattttttctttcttcttaattttaatcagtggttag-atttggttgtgttccaatagaagaaaagggggtatctagagagatgtgaatttcatgaagtggttcatgattatgtgtctttatgcctttatgtca

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA02G39230.1 (Glycine max), 5'ss of exon 3
GAGAATCAGCCACAGAACTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggcttattcttgtcatccatgataaattcttcgtttctatgtatcctttttagcct-----tctaata-----------ctttactctctctcag-------------------------------------------
|||||| ||||||||||||||||||||||||||||| ||  |||| || ||||| |||||||| || |||  ||  | |||  | ||  | ||  |   |||||  ||    |  ||  | ||||         || || |           |||||  ||  || ||                                           
GAGAATTAGCCACAGAACTCACCATCAAAACCATGGACACATTGAGAAGGATGAGTCATGGGTTCCAgtatgtgattaattgct-tctcctatagttg-ttcttgattcaattacattttatttatttggtaggtccaagaaaaaagggaatctttatgcttcctgaggctgttcttgaacatggctcttttttatgtgtcattatcttag

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA14G37350.2 (Glycine max), 5'ss of exon 3
GAGAATCAGCCACAGAACTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggcttattcttgtcatccatgataaattc---ttcgtttctatgtatcctttttagccttctaatactttactctctctcag------------------------------------------------
|||||| ||||||||||||||||||||||| ||||| ||  |||| || |||||||| ||||| || |||  ||  | | |  | || || ||  | | ||    |||  ||  || |||   ||| |    |  || |    |       | |                                                 
GAGAATTAGCCACAGAACTCACCATCAAAATCATGGACACATTGAGAAGGATGAATCCTGGGTTCCAgtatgtgattaactact-tcctctatagttatttttgattcaattaaatttatttatttaataagttcaagaaaaaaggaatctttatacttcagataaagctgttcttgaacatttttttttgtcattatcttag

upper sequence: Vv06s0004g06730.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT2G29980.1 (Arabidopsis thaliana), 5'ss of exon 3
GAGAATCAGCCACAGAACTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggcttattcttgtcatccatgataaattcttcgtttctatgtatcctt-tttagccttctaatactttactctctctcag----------------
|||||| |||||| | || ||||| || |||||||| ||||||||||| || || |||||||| |||||||     ||     | |||||  ||     || |   ||||  | |||  || |||  || || |||| ||||    ||   |                 
GAGAATAAGCCACCGGACACACCACCAGAACCATGGCCATGTTGAAAACGACGAGTCATGGGTTCCGgtaatc--tttccctctctcatcagtgtactcttgtctttttcattttatatttattttcccgtcgaataatttatatgcttaaaacacttagaaaattcta

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|352768954|gb|FQ468145.1|FQ468145
EST:     CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCG                         TTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
genomic: CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggct ... tctctctcagTTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
EST: gi|161712917|gb|FC062390.1|FC062390
EST:     CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCG                         TTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
genomic: CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggct ... tctctctcagTTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
EST: gi|294966337|gb|GW837588.1|GW837588
EST:     CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCG                         TTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
genomic: CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggct ... tctctctcagTTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
EST: gi|352773722|gb|FQ472504.1|FQ472504
EST:     CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCG                         TTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
genomic: CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggct ... tctctctcagTTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
EST: gi|351019690|gb|FQ439507.1|FQ439507
EST:     CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCG                         TTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA
genomic: CTCACCATCAAAACCATGGTCATGTTGAAAATGATGAATCATGGGTCCCGgtaaatggct ... tctctctcagTTGCCTGAGAAAATGTACAAGAACTTGGACAACAGCACCCGAATTTTCAGA