Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAAGTTGGAATAAAGAAATTCAAAGACATTCCCAACAGAAGCATTCCCTCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctccatatgtatctccataaatacatagactataagaatgagttagatgccatatgtatctgacttgagtgagccaacaatctataccaagctaaaaagaagaaagccagcagattttaaattcaagtgagttgatttaaagtgatcagtatatctgatgaaagttggctttgcag

Basic information

species Vitis vinifera
transcript Vv04s0008g01100.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os06g36920.1 (Oryza sativa), 5'ss of exon 2
GAGAAGTTGGAATAAAGAAATTCAAAGACATTCCCAACAGAAGCATTCCCTCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctccatatgtatctccataaatacatagactataagaatgagttagatgccatatgtatctgacttgagtgagccaacaatctataccaagctaaaaagaagaaagccagcagattttaaattcaagtgagttgatttaaagtgatcagtatatctgatgaaagttggctttgcag
  || || || || | | | || ||   |||  | ||| | ||| | ||  |  | ||| | |  |||||||||||||| ||||| ||||||||||| ||||       ||||   |     || || |  ||  || || |    | ||        ||| ||| | | | |  |   |  | |||  |    | |||||||||||   |    | |                                                                
AGGAGGTCGGGATCAGGCAGTTTAAGAGCATCGCAAACCGGAGCTTGCCGGCGCCTATCGCCGGCTCCCCTCTCCACCAGAAGGGCCTCTTCTTCACAAGgt-------cataacaaaaaaaattaaaaattaatctgtaggtgaaacttt-------tatatattt-attcgtatagacttaaaattca----acgctaaaaagaaattacgttgaaa---------------------------------------------------------------

upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G018612_T01 (Zea mays), 5'ss of exon 2
GAGAAGTTGGAATAAAGAAATTCAAAGACATTCCCAACAGAAGCATTCCCTCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctccatatgt--atctccataaatacata-gactataagaatgagttagatgccatat-gtatctgacttgagtgagccaacaatctataccaagctaaaaagaagaaagccagcagattttaaattcaagtgagttgatttaaagtgatcagtatatctgatgaaagttggctttgcag
| || |||||  | | | | |||||   ||| |||||||| ||| | ||  |  | ||| | |  |||||||||||||| ||||| ||||||||||| ||||   | |   |  ||   | | | |  |  |||  |  |  | ||    ||     |||| || | ||     |   || ||                                                                                                       
GGGAGGTTGGCGTCAGGCAGTTCAAGCTCATCCCCAACAGGAGCTTGCCGGCGCCGATCGCCGGCTCCCCTCTCCACCAGAAGGGCCTCTTCTTCACTAGgtgacttttagttcgttcgttttcctctacgcatttggatccacgagcaggt---gcgccacatagcattgcgatctcgtcag-------------------------------------------------------------------------------------------------------

upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G34530.1 (Glycine max), 5'ss of exon 2
GAGAAGTTGGAATAAAGAAATTCAAAGACATTCCCAACAGAAGCATTCCCTCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctccatatgtatctccataaatacatagactataagaatgagttagatgccatatgtatctgacttgagtgagccaacaatctataccaagctaaaaagaagaaagccagcagattttaaattcaagtgagttgatttaaagtgatcagtatatctgatgaaagttggctttgcag
 |||||| |||||||| ||||||||||||||||| |||||||||||||||||| | || ||||| ||||| || |||||||| ||||||||||| |||||||||        || | | ||  |   |        | ||| |||    || |    |  |||   | | ||  | ||   |  | | |  |  ||| || | |  |||                                                                         
AAGAAGTGGGAATAAAAAAATTCAAAGACATTCCAAACAGAAGCATTCCCTCTCCTATTTCAGCTTCCCCCCTTCACCAAAAAGGTCTCTTCTTTACCAGgtatacaatttaatttttttcttttctttt------tgtaataatagcataaacaataattgt---taatttacgagacaaactattattcaataagttagagaataga-------------------------------------------------------------------------

upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA14G11040.1 (Glycine max), 5'ss of exon 2
GAGAAGTTGGAATAAAGAAATTCAAAGACATTCCCAACAGAAGCATTCCCTCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctccatatgtatctccataaatacatagactataagaatgagttagatgccatatgtatctgacttgagtgagccaacaatctataccaagctaaaaagaagaaagccagcagattttaaattcaagtgagttgatttaaagtgatcagtatatctgatgaaagttggctttgcag
 | |||| || || ||  |||||||||||||||| |||||||||||||||||| | || || || || ||||| |||||||| ||||||||||| |||||||||       | |     ||| |   ||   | |  ||||     | |||       |   | | |||    ||| |     ||||   |  ||    | | | ||                                                                           
AAAAAGTGGGTATCAAACAATTCAAAGACATTCCAAACAGAAGCATTCCCTCTCCTATTTCTGCTTCTCCTCTTCACCAAAAAGGTCTCTTCTTTACCAGgtatgcaattttgttctcttccttttgtaacaaaagcataaagcataatta-------ttaatttatgagacaagttattattcaatgagtttcagagaatagataa---------------------------------------------------------------------------

upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA04G05510.1 (Glycine max), 5'ss of exon 2
GAGAAGTTGGAATAAAGAAATTCAAAGACATTCCCAACAGAAGCATTCCCTCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctccatatgtatctccataaatacatagactataagaatgagttagatgccatatgtatctgacttgagtgagccaacaatctataccaagctaaaaagaagaaagccagcagattttaaattcaagtgagttgatttaaagtgatcagtatatctgatgaaagttggctttgcag
  || | ||||||||| ||||||||||||||| | |||||||| ||||||||  | || || || |||||||| ||||||||||| |||||||||| | |||||    | |  | |  | | | |  |    | | ||  |   | | ||  |     |     | |      ||| |    |  |  ||||   | ||  ||                                                                               
AGGAGGCTGGAATAAAAAAATTCAAAGACATTTCAAACAGAAGTATTCCCTCACCAATTTCTGCTTCCCCTCTTCACCAAAAGGGCCTCTTCTTCAGCCGgtatg---caaattatgacccaacagctttcaataatagtaatgttatttctacaatttggtagtgtttgccaagtaatttcagcagttataaacaactttaa-------------------------------------------------------------------------------

upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA06G05520.1 (Glycine max), 5'ss of exon 3
GAGAAGTTGGAATAAAGAAATTCAAAGACATTCCCAACAGAAGCATTCCCTCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctccatatgtatctccataaatacatagactataagaatgagttagatgccatatgtatctgacttga---gtgagc-caacaatctataccaagctaaaaagaagaaagccagcagattttaaattcaagtgagttgatttaaagtgatcagtatatctgatgaaagttggctttgcag
  || | ||||||||| ||||||||||||||| | |||||||| ||||||||  | || || || || ||||| |||||||| || |||||||||| | ||||   | | |  |    ||| | |       | | ||||  ||||   |   | | |   || |     ||||   || |   ||  | | ||||    | |                                                                                   
AGGAGGCTGGAATAAAAAAATTCAAAGACATTTCAAACAGAAGTATTCCCTCCCCAATTTCTGCTTCTCCTCTTCACCAAAAAGGCCTCTTCTTCAGCCGgta---cgcaaattacgactcaacagtgttcaataatatagtaatgttatttctacaactagtgtagtgtttgataagtaatttcagtactttataagttgtt-----------------------------------------------------------------------------------

upper sequence: Vv04s0008g01100.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT2G26170.1 (Arabidopsis thaliana), 5'ss of exon 2
GAGAAGTTGGAATAAAGAAATTCAAAGACATTCCCAACAGAAGCATTCCCTCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctccatatgtat-ctccataaatacatagactataagaatgagttagatgccatatgtatctgacttgagtgagccaacaatctataccaagctaaaaagaagaaagccagcagattttaaattcaagtgagttgatttaaagtgatcagtatatctgatgaaagttggctttgcag
|||||||||| |||||||| ||||||||  |||| |||||||||||||| ||  | |||||||| || ||||| ||| | || || |||||||||||||||||       | ||  || ||| |||||   ||    |||     ||  |      |||| | |   |   ||||  |                                                                                                         
GAGAAGTTGGGATAAAGAAGTTCAAAGATCTTCCAAACAGAAGCATTCCTTCCCCAATCTCAGCTTCTCCTCTTCACAAGAAAGGCCTCTTCTTCACCAGgtacaatggtacatacatgctctataaaactatg---tatgtttttgtttctataaccatttatgattc-tttgacag---------------------------------------------------------------------------------------------------------

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|161717756|gb|FC064724.1|FC064724
EST:     TCTGCCATCTCAGCATCTCCTCTCCACCAAAAGGGTCTCTTCTTCACCAG                         GGATGCAAGGTGGTCAACAATGAGAAACACTATAATATCAGTCTACCAGCA
genomic: TCTGCCATCTCAGCATCCCCTCTCCACCAAAAGGGTCTCTTCTTCACCAGgtatttctcc ... ggctttgcagGGATGCAAGGTGGTCAACAATGAGAAACACCATAATATCAGTCTACCAGCA