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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatttgaactttgccaaactctcccctctgaacattacttgacatggattagtttgttttgctttctgtaatgcaccttctcttttgtatttgctgagacagattagcttattgactgcatattcaagatctgtctagatcgtttttaactatttgtatgacttaacag

Basic information

species Vitis vinifera
transcript Vv01s0011g04370.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 5'ss of exon 5
AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatttgaactttgc-caaactctcccctctgaacattacttgacatggattagtttgttttgctttctgtaatgcaccttctcttttgtatttgctgagacagattagcttattgactgcatattcaagatctgtctagatcgtttttaactatttgtatgacttaacag
|  |||||||||||| ||||||| ||||||| ||| || |||||||||||||||||||||| |||| |  |      |   |||  |     |   |||  |||   | |  |        || ||| |       |||  |  ||  | |                                                                                
ACCCGTGATGATGCTAGGCAATTTATGAAGTATCTTCACCCTGATCTTGGTGTTGgtaatgaatttaatttccatatatgatctagcagtgcagagttatgtgattggaaaaataaaaacctgattttt-------acccacctttgagcag-------------------------------------------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G095757_T02 (Zea mays), 5'ss of exon 5
AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatttgaacttt--gccaaactctcccctctgaacat--tacttgacatggattagtttgttttgctttctgtaatgcaccttctcttttgtatttgctgagacagattagcttattgactgcatattcaagatctgtctagatcgtttttaactatttgtatgacttaacag
|  |||||||||||| ||||||||||||||| ||| ||||||||||||||||| ||||||||||||    ||     ||  ||      | |  |  |  | ||||| |   | || |||| | |   | || | | |||                                                                                              
ACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCGgtaatgcatttagctttctaatcaggcttagtggtgtagatttaatgcttgataaatactaatttgatatttctactttga-gcag---------------------------------------------------------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G110834_T02 (Zea mays), 5'ss of exon 5
AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatttgaactttg--ccaaactctcccctctgaacat--tacttgacatggattagtttgttttgctttctgtaatgcaccttctcttttgtatttgctgagacagattagcttattgactgcatattcaagatctgtctagatcgtttttaactatttgtatgacttaacag
|  |||||||||||| ||||||||||||||| ||| ||||||||||||||||| |||||||||||| |  ||||   || |||  |   | |  |  |  | ||||| |     || |||| | |   | || | | |||                                                                                              
ACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCGgtaatgcatttaacttttggatcagacttactgttgtagatttaatgcttgataaatgctaatttgatatttgtactttga-gcag---------------------------------------------------------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA20G25830.2 (Glycine max), 5'ss of exon 8
AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatttgaactttgccaaactctcccctctgaacattacttgacatggattagtttgttttgctttctgtaatgcaccttctcttttgtatttgctgagacagattagcttattgactgcatattcaagatctgtctagatcgtttttaactatttgtatgacttaacag
|| |||||||| ||||| || || ||||||||||| |||||||||||||||||||||||| || |   | | |       | |   || ||||  |  || || ||||| |   ||| ||   | |||| | || |       |||   |||||   | |||  || | | ||| |||   | |    |||||    ||                               
AAGCGTGATGACGCTCGACAGTTTATGAAGTTTCTTCATCCTGATCTTGGTGTTGgtaattcaatctgattctttt---ttattagctttgaat-tggctggaaatggaattaattgattatgtatctgcattgta-------tttgagatttg--aaaacatttttggtaatt-actatgttt----gatcttggcag-------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA10G41430.1 (Glycine max), 5'ss of exon 6
AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatttgaactttgccaaactctcccctctgaacattacttgacatggattagtttgttttgctttctgtaatgcaccttctcttttgtatttgctgagaca--gattagcttattgactgcatattcaagatctgtctagatcgtttttaactatttgtatgacttaacag
|| |||||||||||||| || || ||||||||||| |||||||||||||| ||||||||| || |   | | |       | |   |||||||  ||  ||   ||  |||  ||   | |      |||| |  |  ||        | |||| | || ||  ||| |   | ||  || ||  || || || |||        | ||| |   || | |           
AAGCGTGATGATGCTCGACAGTTTATGAAGTTTCTTCATCCTGATCTTGGCGTTGgtaattcaatccgattctttt---ttattagctctgaa--ttggttagaattaattgattatgtatcagcgttgtatttgagatttgaaaacatttttggttagtcaaggataaagctgttttcttcagtttaaaaatatgtaatttctatgtttgatc-ttggcag----------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G15110.2 (Arabidopsis thaliana), 5'ss of exon 6
AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatttgaactttgccaaactctcccctctgaacattacttgacatggattagtttgttttgctttctgtaatgcaccttctctt-ttgtatttgctgagacagattagcttattgactgcatattcaagatctgtctagatcgtttttaactatttgtatgacttaacag
| |||||||||||| ||||| ||||||||||||||||| ||||| |||||  | |||||    || | |    |  |  || |    ||       |||   ||||  || |      ||  |  ||| || ||    | ||| | ||| |                                                                                
AGACGTGATGATGCACGGCAGTTCATGAAGTTTCTCCACCCTGACCTTGGAATAGgtaagagtttcggaga--ggaatgctgtttattcgaggagctacc--acatcaatga------ttgaccatct-tattgagtttgctcatgttgcag-------------------------------------------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S13_364V6.1 (Physcomitrella patens), 5'ss of exon 5
AAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatttgaactttgccaaactctcccctctgaacattacttgacatggattagtttgttttgctttctgtaatgcaccttctcttttgtatttgctgagacagattagcttattgactgcatattcaagatctgtctagatcgtttttaactatttgtatgacttaacag
|| || |||||||| || |||||| |||| | ||| |||||||| |||||||||||||||  |||     | | ||      |  | | || |  || |||         |||| |  | |  ||   ||||    ||| ||  |    |   || ||   | ||||     ||                                                        
AAGCGGGATGATGCGCGACAATTCTTGAAATATCTGCATCCTGACCTTGGTGTTGgtaat--attcaggatctacc----cttgtcatttgtatgtttctt---------tagtgtaatgttattatcgtaa---gcctacttatgaccagcagc-gaacgacattatgccctt--------------------------------------------------------

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|349828936|gb|FQ419269.1|FQ419269
EST:     TGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTG                         AACTTCCTGAAAGATCGTATGGTGCTGATTGCCGCATTTATGTGCCTGAAA
genomic: TGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTGgtaatgcatt ... gacttaacagAACTTCCTGAAAGATCGTATGGTGCTGATTGCCGCATTTATGTGCCTGAAA
EST: gi|351026887|gb|FQ436540.1|FQ436540
EST:     TGATGCTCAGG-AATTCATGAAGTTTTCTCCATCCTGATCTTGGTGTTTG                         AACTTCCTGAAAGATGGAATGGTGCAGATTGCCACATTTA
genomic: TGATGCTC-GGCAATTCATGAAGTTT-CTCCATCCTGATCTTGGTGTT-Ggtaatgcatt ... gacttaacagAACTTCCTGAAAGATCGTATGGTGCTGATTGCCGCATTTA