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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacagttacagtggcagttggtgttaattttcttttacatattacttgaaatgcagtttgtcttatcaataaatgtaactttcaactactcaatggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG

Basic information

species Vitis vinifera
transcript Vv18s0001g09320.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g10940.1 (Oryza sativa), 3'ss of exon 5
-------------gtaacagttacagtggcagttggtgttaattttcttttacatattacttgaaatgcagtttgtcttatcaataaat-gtaactttcaactactcaatggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
                |   ||| |     |     |   ||||  | |   | || | ||  ||||     ||| | |||  | | || | |||| | |  | ||  ||  |   | ||||     ||||| ||||||||||| |||||||| ||||| || ||||| |||||||||||||| ||||| ||||||
gtgtgtttgccctcctatgattataa-aataacctatcaaaattgccatggccttacttctgtaaatt--acttg-cgtatagaaagatagcaactgtta--tgctttattta--ctgtttttgatgcagATATTTCGCAAGGAACCATTCTTCTATGGCCACGATAACCATGACCAGCTTGTCAAAATAGCCAAG

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G22250.1 (Glycine max), 3'ss of exon 5
-------------gtaacagttacag--tggcagttggtgttaattttcttttacatattacttgaaatgcagtttgtctt---atcaataaatgtaactttcaactactcaa----tggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
              ||   | ||||   |    |||     | |  | || ||    |||| |||| ||| ||| |   ||   ||| | |  |  ||  |      | ||      ||    | ||  | |    |||| ||||||||||| || |||||||||||||| || || |||||||||||||| ||||| || |||
gtgagaattatagctataggctacaacttactggttatatgtgacatgctcttg-gcattatttgatatgaagtctaattttgaatctacatgtacaaaatcgtgtaattctgggtttgatcatcttacttcatgtagATATTTCGCAAGGAACCTTTCTTTTATGGTCACGACAACCATGACCAGCTTGTCAAAATAGCTAAG

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G39950.1 (Glycine max), 3'ss of exon 5
-------------gtaacagttac-agtggcagttggtgttaattt---tcttttacatattacttgaaatgcagtttgtcttatcaataaatgtaactttcaactactcaatggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
              ||  |||| |   |   |  |||  |    ||     || | || ||    | || |  ||  |   | || || |||||| |  |||   | |  |||     || |  |      |||| |||||||| || || ||||||||||||||||| || ||||| |||||||| ||||| || |||
gtgtgaatcataactacaagtttctgattatatatggcatactcttgacatttatgcagatggtctaaatttgagcatacatgattaa-aaatgtgagattctggt-cataattttcattgtactttttgtagATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAG

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G05340.2 (Glycine max), 3'ss of exon 5
-------------gtaacagttac-agtggcagttggtgttaatttt---cttttacatattacttgaaatgcagtttgtcttatcaataaatgtaactttcaactactcaatgga--ggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
              ||  ||||||  ||   |  |||  |    ||     || | || ||    | || |  ||  |   | || || ||||||||  |||   |  | | | |   | | |  |       |||| |||||||| || || ||||||||||||||||| || ||||| |||||||| ||||| || |||
gtgtgaattataactataagttactggttatatatggcatactcttgacatttatgcagatggtctaaatttgagcgtacatgattaa-aaatgtaaaattctggtcataatttgttcgttgtactcttttgtagATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAG

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G17790.1 (Glycine max), 3'ss of exon 5
gtaacagttacagtggcagttgg-----tgttaattttcttttacata---------ttacttgaaatgcagtttgtctt---atcaataaatgtaactttcaactactca-----atggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
|| | | ||| ||    ||         |  |  || | | | |||||         ||| || | ||| ||| |   ||   ||| | |  |  ||  |      | ||      |||    ||||  |     ||||| ||||||||||| || || ||||||||||| || || ||||| |||||||| ||||| || |||
gtgagaattatagctataggctacaacttactggttatatgtgacatacccttggcgttatttaatatgaagtctaattttgaatctacatgtacaaaatcgtgtaattctgggttatgatcattttacttaatgcagATATTTCGCAAGGAACCTTTTTTTTATGGTCACGACAACCATGATCAGCTTGTCAAAATAGCTAAG

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S165_119V6.1 (Physcomitrella patens), 3'ss of exon 6
-----------------gtaacagttacagtggcagttggtgttaattttcttttac-atatt-acttgaaatgcagtttgtcttatcaataaatgtaactttcaactactcaatggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
                  | |   || |  |||   ||| |  | |   | | |  | |  || | |||   |   ||||   || | |       |  | || |||   | ||| || ||  ||       ||||| ||||| |||||||||||||||||||| ||||| ||| |||| || ||||| || ||||| |||
gtaaatttaattccaagttcaatatttcgatggtccttgattatcacagtttgtcgctacgttgatttgctttttggtttagtttttgagcttgattctcgttaaacaggtgaattgaagtgatt------gcagATATTTCGGAAGGAGCCATTCTTTTATGGGCATGACAATTATGATCAACTTGTGAAGATTGCTAAG

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 3'ss of exon 6
gtaacag----ttacagtggcagttggtgttaattttct----tttacatattacttgaaatgca-gtttg---tcttatcaataaatgtaactttcaactactcaatggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
|||||      |  ||||     ||     |||| ||      ||||||  || |     |||    | ||   | || ||| |       ||||     ||  |    ||| ||   |      ||||| ||||| |||||||||||||||||||| ||||| ||| |||| |||||||| || |||||||||
gtaacgtatcctcgcagtttattttaacactaatctttcgttatttacagttttcccatgatgtgtatctgcgattttttcattctgaagtacttctcgttatgctgaagagattgcgtggttg-cagATCTTTCGGAAGGAGCCATTCTTTTATGGACATGACAATTATGATCAGCTTGTGAAGATTGCCAAG

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S230_93V6.1 (Physcomitrella patens), 3'ss of exon 5
gtaacagttacagtggcagttggtgttaattttcttttacatattacttgaaatgcagtttgtcttatcaataaat--gtaactttcaa--ctactcaatggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
||||    |  | |     |   | || | |||    |  | ||| | ||||   ||  || ||  || ||| ||   | |  || |||  ||            ||| |||      ||||||| ||||||||||| || || ||||||||||| ||| |||| |||||||| || || || |||
gtaaggaatgtattc----tatattttgaattttgcatgtacatt-cctgaagccca--ttatcccat-aatgaaccagcaggttgcaaacctgacaggctaccatttgtttaattgtagATTTTCCGCAAGGAGCCGTTTTTCTATGGTCATGACAATTATGATCAGCTTGTCAAGATCGCTAAG

upper sequence: Vv18s0001g09320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ20478 (Selaginella moellendorffii), 3'ss of exon 5
gtaacagttacagtggcagttggtgttaattttcttttacatattacttgaaatgcagtttgtcttatcaataaatgtaactttcaactactcaatggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
                                                      |   ||||||| |||| |    |||  |   |||  | |||     | ||        |||||| |||||||| || |||||||||||||| ||||| ||||| || ||||| || || |||||||||
--------------------------------------------------gtgagtcttttgtctgatcatt---cgtacttgctaacgccccaa-----gcttc-------acagATATTTCGCAAAGAACCATTCTTTTATGGCCATGACAATCACGATCAGCTGGTGAAGATTGCCAAG

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|26265141|gb|CA816204.1|CA816204
EST:     ATGACTATTCTTTGGATATGTGGAGCCTAGGTTGTATGTTTGCGGGAATG                         ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTT
genomic: ATGACTATTCTTTGGATATGTGGAGCCTAGGTTGTATGTTTGCGGGAATGgtaacagtta ... ttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTT
EST: gi|26267081|gb|CA818144.1|CA818144
EST:     ATGACTATTCTTTGGATATGTGGAGCCTAGGTTGTATGTTTGCGGGAATG                         ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTT
genomic: ATGACTATTCTTTGGATATGTGGAGCCTAGGTTGTATGTTTGCGGGAATGgtaacagtta ... ttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTT
EST: gi|34549230|gb|CF517462.1|CF517462
EST:     ATGACTATTCTTTGGATATGTGGAGCCTAGGTTGTATGTTTGCGGGAATG                         ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTT
genomic: ATGACTATTCTTTGGATATGTGGAGCCTAGGTTGTATGTTTGCGGGAATGgtaacagtta ... ttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttatcaataaatgtaactttcaactactcaatggaggtttttttcccaacagATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAG
             atgtaac  putative branch site (score: 3)
                                        tttttttccc  putative PPT
        aataaatgtaacttt  TA-rich tract