Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcctgcagttctccatatcttgatgctagttttgatagtttagagcttttctatcgattgacttggtcattttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA

Basic information

species Vitis vinifera
transcript Vv03s0038g04250.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os07g24190.2 (Oryza sativa), 3'ss of exon 6
gtaagcctgcagttctccatatctt---gatgctagttttgatagtttaga-gcttttctatcgattgacttggtcattttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
|||||  |    | | |||||| |    ||| ||    |  | |  |||     ||||||  |  || |  |      |||   ||    |||||||||||||||||||||| || || ||||| ||||| ||||| |||||||| |||||||||||||| |||||||| |||||| ||||||| || ||||
gtaagatt----tgccccatatttctgagatactctcctacacaagttatttaattttcttgcagtttatctaaca--tttgcttgttacagATCAACATGAAAGGCTTGGATGGTATCCAAGGCCCCATCTATGTTGGTACTGGATGTGTCTTTAGAAGGCAGGCATTGTATGGTTATGATGCCCCCAAAA

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os03g62090.1 (Oryza sativa), 3'ss of exon 10
gtaagcctgcagttctccatatct-tgatgctagttttgata-gtttagagcttttctatcgattg--acttggtcat--tttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
|||||  |    |   | |||| | |||| ||  |  |  |   | | ||||  |   |     ||    ||    ||  ||||| |     |||||||||||||||| ||||| || |||||||| ||||| ||||| |||||||| ||||||||||||||||||||  | |||||| ||||||| || ||| 
gtaagattt--atctccaatatttctgattctgttcatcgtgtatgttgagccatcaaacttgatgctgtttccctattatttatttcttgcagATCAACATGAAAGGTTTGGATGGTATTCAAGGCCCCATCTATGTCGGTACTGGATGTGTCTTTAGAAGACAGGCGCTGTATGGTTATGATGCCCCCAAAT

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os07g14850.1 (Oryza sativa), 3'ss of exon 9
gtaagcctgcagttctccatatcttgatgctagttttgatagtttagagcttttctatcgattgacttggtcattttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
|||||  |     ||||     ||     || ||  |     ||  |    || ||||       | |  |  ||  || || || ||||||||||||||||  |||| ||||||||||| ||||| ||||| |||||||| |||||||| ||| | || ||  |||||||| ||||||| |||||||
gtaagattcagcctctctggtactaagaccttgtggtctatattatgcttgttactattatggttcctaatatttgcat-tgtac-agATCAACATGAAAGGTCTGGATGGAATTCAAGGCCCCATCTATGTTGGTACTGGATGTGTCTTCAGACGGCAAGCTCTCTATGGTTATGATGCGCCAAAAA

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G177631_T01 (Zea mays), 3'ss of exon 8
gtaagcctgcagttctccatatcttgatgctagttttgatagtttagagcttttctatcgat-tgacttggtcattttatatgcact--agATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
|||||  |  | ||| |  | |    |  |     || |  | |      |||  | ||||| |  | |  |  |||| ||    ||  |||||||||||||||| |||||||| ||||||||||||||||||||||||||||| ||||| || ||| | |||||| | |||||| |||||||||| ||||
gtaagattcaacttccc--tgttcgaacacacaccttaa--gctcttcattttattgtcgatgtctcatattttttttgtaacacctgcagATCAACATGAAAGGTTTGGACGGTATTCAAGGACCCATTTATGTGGGTACTGGATGTGTTTTCAGACGGCAGGCACTGTATGGTTATGATGCTCCTAAAA

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G028353_T02 (Zea mays), 3'ss of exon 10
gtaagcctgcagttctccatatctt-gatg--ctagttttgatagtttagagcttttctatcgattgacttggtcat-tttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
|||||  |  |  |    || |||  ||||  ||  | |  | | | |  |  |||  |   || ||  ||  | |  ||| |       |||||||||||||||| ||||| || ||||| || || |||||||| |||||||| ||||| |||||||| |||||||| |||||| ||||||| || ||||
gtaagatttgacattcatatttctgagatgttctgttgtctacattatgtatttttcttggtgaatgttttactaacatttgtgctgtgcagATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCGATTTATGTTGGTACTGGATGTGTGTTTAGAAGGCAGGCATTATATGGTTATGATGCCCCCAAAA

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G082580_T01 (Zea mays), 3'ss of exon 8
gtaagcctgcagttctccatatcttgatgc----tagttttgatagtttagagcttttctatcgattgacttggtcattttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
|||||  |    ||| |  |  |   |  |    ||   |      ||||  |    | |  |   ||  ||       ||  |||    |||||||||||||||| ||||| || |||||||| ||||| |||||||||||||| ||||| || ||| | |||||| | |||||| |||||||||| ||||
gtaagattcagcttccctgttccaacaaacaccttaagctcttcgttttattgtccatgtcacatatgttttctaacacttgcatgatacagATCAACATGAAAGGTTTGGATGGTATTCAAGGGCCCATCTATGTGGGTACTGGATGTGTTTTCAGACGGCAGGCACTATATGGTTATGATGCTCCTAAAA

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G025231_T01 (Zea mays), 3'ss of exon 10
gtaagcctgcagttctccatatctt-gatgctagttttgatagtttagagcttttctatcgattgacttggtcat-tttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
|||||  |     |    || |||  | || |   ||   ||   ||    ||   |   || ||  ||  | |  ||| | |     |||||||||||||||| ||||| || ||||| || || |||||||| |||||||| ||||| |||||||| |||||||| |||||| ||||||| || ||||
gtaagatttagcattcatatttctgaggtgttctgttgtctataatatgtattccttggtgaatgttttactaacatttgtgttgtgcagATCAACATGAAAGGTTTGGATGGTATTCAGGGTCCAATTTATGTTGGTACTGGATGTGTATTTAGAAGGCAGGCATTATATGGTTATGATGCCCCCAAAA

upper sequence: Vv03s0038g04250.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G113137_T01 (Zea mays), 3'ss of exon 10
gtaagcctgcagttctccatatctt---gatgctagttttgatagtttagagctttt--ctatcgat--tgacttggtcattttatatgcac-tagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
|||||    | ||  || | || |    || | |   ||   ||   |    | ||   ||  | ||  ||  |   | || ||| || ||   |||||||||||||||| ||||| || || || || || ||||||||||||||||| |||||||| ||||| |||||||| |||||  | |||||||| ||||
gtaagat--ctgtcatcaaaatttctaagaagttcccttgtctaacatgatacattgaacttacaatgctgtttccctaatgttacattcatacagATCAACATGAAAGGTTTGGATGGTATCCAGGGCCCAATTTATGTGGGTACTGGATGTGTCTTCAGAAGGCAGGCATTATATGGCTACGATGCTCCCAAAA

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|161708357|gb|FC055293.1|FC055293
EST:     GGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGAT                         ATCAACATGAAAGGCTTGGACGGA
genomic: GGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgc ... tatgcactagATCAACATGAAAGGCTTGGACGGA
EST: gi|294965928|gb|GW839267.1|GW839267
EST:     GGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGAT                         ATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACT
genomic: GGATTGATAGGCATGATCGATATGCTAACCGGAACATTGTATTCTTTGATgtaagcctgc ... tatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgatagtttagagcttttctatcgattgacttggtcattttatatgcactagATCAACATGAAAGGCTTGGACGGAATTCAAGGACCCATTTATGTGGGTACTGGGTGTGTCTTTAGAAGACAGGCATTCTATGGTAATGATGCTCCAAAAA
                          gattgac  putative branch site (score: 3)
                                     tcattttatat  TA-rich tract