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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcctcctttctattactttttggatggtgataacatgtatttatggtgtttgaagaaatgaattccatggctgcagTTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGATTACCTTTTGCTTCGTTGTTTGACACTCTTGGCAT

Basic information

species Vitis vinifera
transcript Vv05s0020g04100.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G38920.1 (Glycine max), 3'ss of exon 6
---gtaagttcctcctttctat---tactttttggatggtgataacatgtatttatggtgtttgaagaaatgaattccatggctgcagTTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGATTACCTTTTGCTTCGTTGTTTGACACTCTTGGCAT
    ||  ||  || | |||||   |  | |||  || |    |  | |     |   | ||| |  | |      |  |   |||||| |||||||| ||||||||||| |||||||| |||| |||||   | |   | || |||||||| |||||||| || ||||||||
gtaatatatttttcatatctatgcatgttattttaattgattgagaaggctagcaaatttttttatcagac-----ctttaaatgcagTGGATCGTGTAGATATTGAGGGCAATGCACATAGTGCTCCACACATAAAGCTTCCCTTTGCTTCATTGTTTGATACACTTGGCAT

upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G23730.1 (Glycine max), 3'ss of exon 3
-----gtaagttc-ctcctttctat---tactttttggatggtgataacatgtatttatggtgtttgaagaaatgaattccatggctgcagTTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGATTACCTTTTGCTTCGTTGTTTGACACTCTTGGCAT
      ||  ||  ||| ||| |||   |  | |||  ||  ||||   |      ||  || ||| ||  ||||    |  |  ||||||| ||| |||| ||| | ||||| |||||||||||||  | |||||| | ||| ||||||||  |||||||||| || ||||||||
gtaatatatcttttctcttttatatctgtgttcttttaat--tgattggaaaggcctacagttttttaatcaatg----ctttaactgcagTGGATTGTGTAGATTTAGAGGGTAATGCACACAGTGACCAACTTGTAAAATTGCCTTTTGCACCGTTGTTTGATACCCTTGGCAT

upper sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 5
-----gtaagttcctcctt-tctattactttttggatggtgataacatgtatttatggtgtttgaaga--aatgaatt------------ccatggctgcagTTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGATTACCTTTTGCTTCGTTGTTTGACACTCTTGGCAT
     | || |   |     | || || |||||   |    ||  ||||| ||| || | |  ||||   |   ||||            |  |   |||||| |||||||| ||||||||||| |||||||| |||| || ||   | |   | || |||||||| |||||||| || ||||||||
aacatgcaattgattgtgaatgtaatattttttttgtacctatg-catgtttttttgat-tgagaaggctagcaaatttttttatccgacctttaaatgcagTGGATCGTGTAGATATTGAGGGCAATGCACATAGTGCTCGACACATAAAGCTTCCCTTTGCTTCATTGTTTGATACACTTGGCAT

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|352769603|gb|FQ468531.1|FQ468531
EST:     TTCTGAGAACCCTTACTGCAAGGCCTTGGAAAATGCTAGGGATATTGAAT                         TTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGAT
genomic: TTCTGAGAACCCTTACTGCAAGGCCTTGGAAAATGCTAGGGATATTGAATgtaagttcct ... atggctgcagTTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGAT
EST: gi|352780977|gb|FQ466290.1|FQ466290
EST:     TTCTGAGAACCCTTACTGCAAGGCCTTGGAAAATGCTAGGGATATTGAAT                         TTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGAT
genomic: TTCTGAGAACCCTTACTGCAAGGCCTTGGAAAATGCTAGGGATATTGAATgtaagttcct ... atggctgcagTTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGAT
EST: gi|161714238|gb|FC064147.1|FC064147
EST:     TTCTGAGAACCCTTACTGCAAGGCCTTGGAAAATGCTAGGGATATTGAAT                         TTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTCGTGAGAT
genomic: TTCTGAGAACCCTTACTGCAAGGCCTTGGAAAATGCTAGGGATATTGAATgtaagttcct ... atggctgcagTTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatggtgataacatgtatttatggtgtttgaagaaatgaattccatggctgcagTTGATCGTGTGGATATTGAGGGGAATGCACACAGTGGTCCACTTGTGAGATTACCTTTTGCTTCGTTGTTTGACACTCTTGGCAT
      tgataac  putative branch site (score: 2)
        ataacatgtatttat  TA-rich tract