Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactcatctgactctcttgtctagagttcgctattccctttctgattcaggctgctgactctcatttcaatttctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAAAATCCCAACTTGCAAAAGCATCAAAGACCCAACGATCAAATTCATCTCT

Basic information

species Vitis vinifera
transcript Vv02s0012g01850.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G08200.1 (Glycine max), 3'ss of exon 5
--------------------------------gtaactcatctgactctcttgtcta--gagttcgctattccctttctgattcaggctgctgactctcatttcaatttctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAAAATCCCAACTTGCAAAAGCATCAAAGACCCAACGATCAAATTCATCTCT
                                 | |||    |   | | ||    |  || ||   | |||  |  ||| |||| |||    | |  || |  ||||||  |||  ||||||||||||||||||||||||     |||| || ||||| ||||| |||||||| |||||||||||||| ||||| |||||| |||||||||| ||| |
gtaatttattccatttccttttgttcttcctgattacttgcatctttattttactgaatgaatttatttttctgtacctg-ttcacgctatctaatgccacta-aatttcattttgtagATGATATTGGCTCCAACATTGAGAACTCCCATGCAGCAACTGCACAAGCAAAATCTCAACTTGCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTT

upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G13410.1 (Glycine max), 3'ss of exon 5
gtaactcatctgactctcttgt-ctagagttcgctattc-cctttctgattcaggctgctgactctcatttc------------aatttctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAAAATCCCAACTTGCAAAAGCATCAAAGACCCAACGATCAAATTCATCTCT
|||| | ||   | || ||| |  |     | | || |    | | |  || |   | |   ||| |||| |            ||||||  |||  ||||||||||||||||||||||||     |||| || ||||||||||| |||||||| |||||| ||||||| ||||| |||||| |||||||||| ||| |
gtaatttattccattcccttttgttcttcctggttacttgtatctttattttactgtacctgctcacattacctagtgccactaaatttcattttgtagATGATATTGGCTCCAACATTGAGAACTCCCATGCAGCAACAGCACAAGCAAAATCTCAACTTTCAAAAGCTTCAAAAACCCAAAGATCAAATTCCTCTTT

upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G33950.1 (Glycine max), 3'ss of exon 5
--------------------------gtaactcat--ctgactctcttgtctagagttcgctattccctttct-gattcaggctgctgactctcatttcaa----tttctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAAAATCCCAACTTGCAAAAGCATCAAAGACCCAACGATCAAATTCATCTCT
                           |  || ||  |  ||  ||| ||    | |    | ||   | ||| || |     |  |   | | || | ||    || |  |||  |||||||||||| ||||| |||||   | |||| || ||||| |  || |||||||| |||||||| ||||| |||||||| ||| |||||||||||||| |
gtaacttagtgttttcccttcatgcttttgctaattacacacattctagttctaactctatttttaaatgtctagacttgtttttttttatttgatgtaaaatatttccattttgtagATGATATTGGGTCCAATATTGAGCATTCCCATGCAGCAACTGTGCAAGCAAAATCTCAACTTGCCAAAGCTTCAAAGACACAAAGATCAAATTCATCTTT

upper sequence: Vv02s0012g01850.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G01960.1 (Glycine max), 3'ss of exon 5
-------------------------gtaactcat--ctgactctcttgt-ctagagttcgctattccc---tttctgattcaggctgctgactctcatttcaatttctc--ttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAAAATCCCAACTTGCAAAAGCATCAAAGACCCAACGATCAAATTCATCTCT
                          |  || ||  |  ||  |||||| ||| | ||    ||  |     || |  ||     |    ||| | || | || ||  |  |||  ||||||||| || ||||| |||||   | |||| |  ||||| || || |||||||| |||||||| ||||| |||||||| ||| |||||||||||||| |
gtaacttagtttttcccctcccagttttgctaattacacacattcttgtactatatttttaaatgtctagacttttttttttaattttaaactttgatgtaaaatttccattttgtagATGATATCGGGTCCAATATTGAGCATTCCCATGAAGCAACTGCGCAAGCAAAATCTCAACTTGCCAAAGCTTCAAAGACGCAAAGATCAAATTCATCTTT

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|349814626|gb|FQ399266.1|FQ399266
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
EST: gi|349814672|gb|FQ400310.1|FQ400310
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
EST: gi|349807660|gb|FQ402051.1|FQ402051
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
EST: gi|110690731|gb|EE068149.1|EE068149
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCNAGGAGTTATGATTG                         ATGATATTGGCTCCAACA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACA
EST: gi|110403262|gb|EC964685.1|EC964685
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCGACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
EST: gi|349828272|gb|FQ416225.1|FQ416225
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
EST: gi|349823620|gb|FQ415030.1|FQ415030
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
EST: gi|349821234|gb|FQ404366.1|FQ404366
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
EST: gi|110369733|gb|EC933900.1|EC933900
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
EST: gi|349817337|gb|FQ405341.1|FQ405341
EST:     GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTG                         ATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA
genomic: GATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgtaactcatc ... ctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgctattccctttctgattcaggctgctgactctcatttcaatttctcttttcagATGATATTGGCTCCAACATTGATGGTGCCCAGGCTGCAACAGCACAGGCAAAATCCCAACTTGCAAAAGCATCAAAGACCCAACGATCAAATTCATCTCT
                        tgctgac  putative branch site (score: 2)
                              ctctcatttcaatttc  CT-rich tract
                                   atttcaattt  TA-rich tract