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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGCTCTCGAAAGACAAATTTTGGAAATTCGATAAATCTGAAAGTTTCTGGGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctacatcttttaaaaaccaaacacatgattttggtttatcaaagtcacatttttttttttaaatctatgtttgataatttgtgcttatttttgttttctctaatgagttagtatatatgcag

Basic information

species Vitis vinifera
transcript Vv04s0008g03170.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g03170.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G376074_T01 (Zea mays), 5'ss of exon 12
GCGCTCTCGAAAGACAAATTTTGGAAATTCGATAAATCTGAAAGTTTCTGGGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctacatcttttaaaaaccaaacacatgattttggtttatcaaagtcacatttttttttttaaatctatgtttgataatttgtgcttatttttgttttctctaatgagttagtatatatgcag
||| ||  | | |||||  | ||| ||||| || | | ||||||| ||||| ||||||||  |||| ||||| ||| | |||||||||||||| || |||||| | ||       || | ||  ||   |  |    | |    || |      ||| ||| |  || | ||     |   || |      ||||||| ||  || |    | |             
GCGTTCCAGGAGGACAAGCTCTGGGAATTCAATCAGTTTGAAAGTCTCTGGTTCCACATCCGTCTATCAGTTGAAACTCATGATATGGGAATCTTTAGGGgtatggta-------tagatactgaatctacaagccagct----cagatatttgtttctttctccaattttaaaaaggg--atctactggcatttttgctta-tccatcttgct-------------

upper sequence: Vv04s0008g03170.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G154621_T01 (Zea mays), 5'ss of exon 12
GCGCTCTCGAAAGACAAATTTTGGAAATTCGATAAATCTGAAAGTTTCTGGGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctacatcttttaaaaaccaaacacatgattttggtttatcaaagtcacatttttttttttaaatctatgtttgataatttgtgcttatttttgttttctctaatgagttagtatatatgcag
||| || || |  ||||  | |||||| || || | | ||||||| ||||| || |||||  |||| ||||| ||| |||||||||||||||| || |||||| || |||        |    || ||| | |  |||    |||| ||  ||             ||||| |     ||| ||  | | |  ||    ||||   |  || ||  || || |    
GCGTTCCCGGAGAACAAGCTCTGGAAACTCAATCAGTTTGAAAGTCTCTGGCTCTACATCTGTCTATCAGTTGAAACTGATGATATGGGAATCTTTAGGGgtatgc-aca--------aggggaatcac-taaaattgtgcgatcacagatact------------aatctgtacc--atagttgtttccttcttcatgtttcaaaagggacttcatacattta---

upper sequence: Vv04s0008g03170.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA17G29610.1 (Glycine max), 5'ss of exon 12
GCGCTCTCGAAAGACAAATTTTGGAAATTCGATAAATCTGAAAGTTTCTGGGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctacatcttttaaaaaccaaacacatgattttggtttatcaaagtcacatttttttttttaaatctatgtttgataatttgtgcttatttttgttttctctaatgagttagtatatatgcag
 || || || ||||| ||   ||  | ||| || | ||||||||||||||  || |||||||| || ||| | |||||||||||||||||||| ||||||||| || |  | |                 || | |  | ||||||   |   |      |  | | || | | |||  |  |||||   | |    |  ||   ||   || |             
ACGTTCCCGGAAGACTAAAAATGAGAGTTCCATTAGTCTGAAAGTTTCTGCTTCAACATCAATTTATCAGCTGAAAATGATGATATGGGAATCGTTTGGGgtaagccaagttt----------------gtgctatatgcttatcattatgctaaaaccctcctcatatttgtatttagttttttgt-tgtgtaaaagcatttcatatcaaggtgag----------

upper sequence: Vv04s0008g03170.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA14G17070.1 (Glycine max), 5'ss of exon 14
GCGCTCTCGAAAGACAAATTTTGGAAATTCGATAAATCTGAAAGTTTCTGGGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctacatcttttaaaaaccaaacacatgattttggtttatcaaagtcacatttttttttttaaatctatgtttgataatttgtgcttatttttgttttctctaatgagttagtatatatgcag
 || || || ||||| ||   ||| | ||| || | ||| ||||||||||  || ||||| || |||||| | ||||||||||||||||||||||||| |||| |  |  | | |      | | |  | |    | | | |    || || |  |  | ||| ||  |   | |||  |  ||||||      |||  | ||   || | |               
ACGTTCCCGGAAGACTAAAAATGGGAGTTCCATTAGTCTAAAAGTTTCTGCTTCAACATCTATTTACCAGCTGAAAATGATGATATGGGAATCCTTTGCGgtaagacaagtttgt-----gctatatgctta---tcgttatgctgaaatccccatcatatttgtat-ttagttttttgttttttgtgaaagcatttcatatc---aaggtg---------------

upper sequence: Vv04s0008g03170.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA04G07850.2 (Glycine max), 5'ss of exon 13
GCGCTCTCGAAAGACAAATTTTGGAAATTCGATAAATCTGAAAGTTTCTGGGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctacatcttttaaaaaccaaacacatgattttggtttatcaaagtcacatttttttttttaaatctatgtttgataatttgtgcttatttttgttttctctaatgagttagtatatatgcag
 || || || ||| | ||   ||| ||||| || | ||| ||||||||||  || |||||  | || ||| | |||||||||||||||||||||||||||||| |     ||| |          |  ||||    |  ||||    |||   | | || |   |||    |||||  | |  ||       |      |||| ||||                   
ACGTTCCCGCAAGTCTAAAAATGGGAATTCAATTAGTCTAAAAGTTTCTGCTTCAACATCTTTATATCAGCTGAAAATGATGATATGGGAATCCTTTGGGgtaagtctagtctat-----gttgtatgcatg----tactttaattcagtttaaatgttgtaagtaagcacatgttaaaaatattaaatagctaaggagtttccctaac------------------

upper sequence: Vv04s0008g03170.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA06G07920.1 (Glycine max), 5'ss of exon 11
GCGCTCTCGAAAGACAAATTTTGGAAATTCGATAAATCTGAAAGTTTCTGGGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctacatcttt-taaaaaccaaacacatgattttggtttatcaaagtcacatttttttttttaaatctatgtttgataatttgtgcttatttttgttttctctaatgagttagtatatatgcag
||| || || ||||| ||   ||| | ||| || | ||| ||||||||||  || |||||  | || ||| | |||||||||||||||||||||||||||||| |     ||| | |   |  ||   || | | || ||||||          | | || |   |||    |||||  | |||   |  | | |||   |    || | |                 
GCGTTCCCGCAAGACTAAAAATGGGAGTTCAATTAGTCTAAAAGTTTCTGCTTCAACATCTTTATATCAGCTGAAAATGATGATATGGGAATCCTTTGGGgtaagtctagtctatgttgtatgcatgtactttaattcggttta----------aatgttgtaagtaagcacatgttaaa-aatagctaatgagtttccctaagacttaag-----------------

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|33408006|gb|CF213633.1|CF213633
EST:     CATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGG                         GTAATTAAGGAAAACCAGATACTTCACAAAGGTTCTACAGTAATTGATGGT
genomic: CATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctaca ... atatatgcagGTAATTAAGGAAAACCAGATACTTCACAAGGGTTCTACAGTAATTGATGGT
EST: gi|30135690|gb|CB921028.1|CB921028
EST:     GGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGG                         GTAATTAAGGAAAACCAGATACTTCACAAGGGTTCTACAGTAATTGATGGT
genomic: GGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctaca ... atatatgcagGTAATTAAGGAAAACCAGATACTTCACAAGGGTTCTACAGTAATTGATGGT
EST: gi|110396979|gb|EC962688.1|EC962688
EST:     GGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGG                         GTAATTAAGGAAAACCAGATACTTCACAAGGGTTCTACAGTAATTGATGGT
genomic: GGTCCACATCAATCTACCAGTTAAAAATGATGATATGGGAATCCTTTGGGgtaggctaca ... atatatgcagGTAATTAAGGAAAACCAGATACTTCACAAGGGTTCTACAGTAATTGATGGT