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'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactataatgtttttattttcttcatttattgttttgaagatcatatttgaggttgttcatgggtgttatgttttgctttcaatttctttagtggtgtgtatattcaatctcattttctcctgttgcttgacaatgattctcttgtttttatttcaacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACTATTGGTTTATATGAACTATACCGTATTACTCAACTGTACCCCAAG

Basic information

species Vitis vinifera
transcript Vv00s0652g00030.t01
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0652g00030.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 48
gtactataatgtttttattttcttcatttattgttttgaagatcatatttgaggttgttcatgggtgttatgttttgctttcaatttctttagtggt-gtgtatattcaatctcattttctcctgttgcttgacaatgattctcttgtttttatttcaactt---gcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACTATTGGTTTATATGAACTATACCGTATTACTCAACTGTACCCCAAG
                                                                ||  |||   |   | | || |    ||    | ||  ||      |  ||  ||          ||||   |   | | |||| ||| |||  | |    | |||| || ||||||||| |||||||||||||||||||||| |||||||| || |||||| | |||||||| ||||| || || |||||||||||||||
----------------------------------------------------------------gtagtattactgattcttaactaacataacatttgtaaattactgcttgcaaatttgtacagcaattgatgtt--ctattttgtctttcttttgattatgggtagCAAGAGCTTGCTGCTGTATTCAAGAAAATTGGTGACAAACAAACATGTACAATTGGTCTTTATGAACTCTACCGGATAACCCAACTGTACCCCAAG

upper sequence: Vv00s0652g00030.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GRMZM2G068755_T01 (Zea mays), 3'ss of exon 49
gtactataatgtttttattttcttcatttattgttttgaagatcatatttgaggttgttcatgggtgttatgttttgctttcaatttctttagtggtgtgtatattcaatctcattttc-tcctgttgcttgacaatgattctcttgtttttatttcaacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACTATTGGTTTATATGAACTATACCGTATTACTCAACTGTACCCCAAG
                                                            |  | |||| | ||   | ||||   |  || ||||||   ||  | ||  | | |    |  | |  | ||  | |  |  |||   |||| |  | |    ||||| || ||||||||||| ||||||||||||||||||||||||||||| || |||||  | |||||||| || || || ||||| || ||||| |||
----------------------------------------------------------gtacagctgttcttttagtcgttca---tgctttgtggtgcaaatgcttaagattaatacagtgatttcacatgctatttttgttctc--ttttgtggctatggacagCAAGAGCTTGCTGCTATTTTCAAGAAAATTGGTGACAAGCAAACATGTACCATTGGCCTCTATGAACTGTATCGGATAACTCAGCTCTACCCAAAG

upper sequence: Vv00s0652g00030.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GRMZM2G009849_T02 (Zea mays), 3'ss of exon 31
gtactataatgtttttattttcttcatttattgttttgaagatcatatttgaggttgttcatgggtgttatgttttgctttcaatttctttagtggtgt-gtatattcaatctcattttctcctgttgcttgacaatgattctcttgtttttatttcaacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACTATTGGTTTATATGAACTATACCGTATTACTCAACTGTACCCCAAG
                                                                   | || |       |||    ||       |||   ||  |  |  | | |      | |  | ||  | |  ||   |   |||| |  | |    ||||| || ||||||||| | ||||||||||| || |||||||||||||| |||||||| || || ||||| || || || ||||| || ||||| |||
------------------------------------------------------------------atcatttcccagcctcagccactgggtctctgtcaaatgcttgagattaatgcagtgtttcacatgctatttttttgttctcttttgtggctatgaacagCAAGAGCTTGCTGCTGTCTTCAAGAAAATCGGCGACAAGCAAACATGTACTATTGGCTTCTACGAACTGTATCGGATAACTCAGCTCTACCCAAAG

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|27585437|gb|CB008132.1|CB008132
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|161716243|gb|FC066506.1|FC066506
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|110724440|gb|EE100271.1|EE100271
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|110731172|gb|EE109088.1|EE109088
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|30301267|gb|CB978061.1|CB978061
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|30299345|gb|CB976139.1|CB976139
EST:     TCTGCAGATGCCCAGTTG-A-                         -AGGAACTTGCTGCTATATTCAAGAAAATTGGTGGCAAGCAAACATGCACT
genomic: TCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|161712847|gb|FC062022.1|FC062022
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTG-A-                         -AGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
EST: gi|30301485|gb|CB978279.1|CB978279
EST:     GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAG                         CAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT
genomic: GTGCCAACAATCCATCACCTGCTACACATTCTGCAGATGCCCAGTTGAAGgtactataat ... caacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcattttctcctgttgcttgacaatgattctcttgtttttatttcaacttgcagCAGGAACTTGCTGCTATATTCAAGAAAATTGGTGACAAGCAAACATGCACTATTGGTTTATATGAACTATACCGTATTACTCAACTGTACCCCAAG
                gcttgac  putative branch site (score: 4)
                            ttctcttgtttttatt  putative PPT
                                 ttgtttttatttcaa  TA-rich tract