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

gtgagtattagtatcactattttgttttgattcctgtattcttaactttgcaatttggtggttgaatatatactgttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGA

Basic information

species Vitis vinifera
transcript Vv10s0003g01460.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os09g15170.1 (Oryza sativa), 3'ss of exon 12
gtgagtattagtatcac-tattttgttttgattcctgt---attcttaactttgcaatttggtggttgaatatatactgttgc--tttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGA
|| || |     | ||   ||       |||||  | |    || |||| | |      |||    |  |   ||  | |||    ||||||| ||||||| ||||| ||||||||||| || ||||||||||||||| | |||||||||||    |||||  |  |||| || || || || || || ||
gtaagcagcccaaacatacatgacaaaatgattttttttcgctttttaaatgtatttaatggacagtacactcattttattgtgtcttcagCTGCTGTGGGACTATCCTTTTTGCAATTCACCAACATGAACTCAATGCGCAACCTCTTCATTGTTGGTGTCTCCCTCTTTCTTGGCTTATCAATACCAGA

upper sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G100484_T03 (Zea mays), 3'ss of exon 11
-------gtgagtattagtat-cactattttgttttgattcctgtattcttaactttgcaatttggtggttgaatatatactgttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGA
          || || |   | ||| | ||   |||  |  |  | |  |  |||||  | | | | | |      ||   |  ||  ||||||| |||||||||| || ||| |||| || || ||||||||||| ||| | || ||||||||||  |||||  |  ||||||||||||| || || || ||
gtaagcaccaagcatcatagtacacaaattgccttttctagcaatgtgttatactttaaactgtagagctaattgctacggtcatgtgttcagCTGCTGTGGGGCTCTCCTTTATGCAGTTCACCAACATGAACTCGATGCGCAATCTCTTCATCATCGGTGTCTCACTCTTCCTGGGTTTATCTATACCAGA

upper sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G06750.1 (Glycine max), 3'ss of exon 11
gtgagtattagtatcactattttgttttgattcctgtat-tcttaactttg-caatttggtggttgaatatatactgttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGA
|||||||| |  |   ||  | || |||  ||     || ||||  |||   | || |  |   | || |       ||  || |||||||||||||||||||||| ||||| || || |||||||||||||||||||||||||| ||    ||||| ||  | ||| | ||||| ||  |||||||
gtgagtatcaccacttctcctgtggtttagtttaaacatctctttgcttcctctatcttatttct-aacaagcttatttttttgcagCTTCTGTGGGGCTATCATTCTTGCAGTTCACTAACATGAACTCAATGAGGAACCTCTTTATTGTTGGTGTTGCCCTTTTCTTAGGTTTTTCTGTTCCTGA

upper sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA06G06840.1 (Glycine max), 3'ss of exon 11
gtgagtattagtatcactattttgttttgattcctgtat-tcttaactttg-caatttggtggttgaatatatactgttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGA
|||||||| |  ||  |   | || |||  ||   | || ||||  |||   | || |  |   |||  || | ||  |  || |||||||||||||||||||||| ||||| || || |||||||||||||||||||||||||| ||    ||||| ||  | ||| | ||||| ||  |||||||
gtgagtatcaccatttcacctatggtttagtttaagcatgtctttgcttcctctatcttttttatgacaattttct-ctatttgcagCTTCTGTGGGGCTATCATTCTTGCAGTTCACTAACATGAACTCAATGAGGAACCTCTTTATTCTTGGTGTAGCCCTTTTCTTAGGTTTTTCTGTTCCTGA

upper sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G12360.1 (Glycine max), 3'ss of exon 13
---------------------------gtgagtattagtatcactattttgttttgattcctgtattcttaactttgcaatttggtggttgaatatatactgttgcttt--cagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGA
                            | | ||       |  | | || | |  | |  |  |||| |   | |||  | |  ||    |||   || | ||| |||  |||||||||||||||| |||||||| || || || |||||||||||||||||||||||||| ||    || ||  |  ||||| | |||||||||||||||||
gtgagtaccaccaactaaactaactaactaactaactaagcctttttattatatatactatttgattccttcttctgccttgttatgac--aattgctaattttgtttttgcagCTTCTGTGGGGCTGTCATTTTTACAGTTCACTAACATGAACTCAATGAGGAACCTCTTTATTTGTGGCGTTTCCCTCTTCTTAGGTTTGTCCATTCCTGA

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|110423240|gb|EC989581.1|EC989581
EST:     ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTG                         CTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
genomic: ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTGgtgagtatta ... ttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
EST: gi|30252279|gb|CB969830.1|CB969830
EST:     ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTG                         CTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
genomic: ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTGgtgagtatta ... ttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
EST: gi|30252280|gb|CB969831.1|CB969831
EST:     ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTG                         CTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
genomic: ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTGgtgagtatta ... ttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
EST: gi|30252292|gb|CB969843.1|CB969843
EST:     ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTG                         CTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
genomic: ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTGgtgagtatta ... ttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
EST: gi|30252293|gb|CB969844.1|CB969844
EST:     ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTG                         CTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
genomic: ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTGgtgagtatta ... ttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
EST: gi|30251886|gb|CB969619.1|CB969619
EST:     ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTG                         CTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA
genomic: ACCCTTCACTATATTTGCTGCTGTATATTGTGTTTTGTTTGGCCTAGTTGgtgagtatta ... ttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctgtattcttaactttgcaatttggtggttgaatatatactgttgctttcagCTTCTGTGGGGCTATCATTTTTGCAATTTACAAACATGAACTCAATGAGGAACCTCTTCATCACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGA
         tcttaac  putative branch site (score: 2)
                                             ttgctttc  putative PPT
                               ttgaatatata  TA-rich tract