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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaattatcatttattttgatgtcctctctatctgcaaaacaatctttctggcttacccatccctagttttgctgacaacgtgtaatgttccaaaaaattgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG

Basic information

species Vitis vinifera
transcript Vv06s0061g00460.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g22970.1 (Oryza sativa), 3'ss of exon 5
gtaacaattatcatttattttgatgtcctctctatctgcaaaacaatctttctggcttacccatccctagttttgctgacaacgtgtaatgttccaaaaaattgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG
|||    || | ||||  | | || |  ||  | |||    |  |||   | |   ||       || |  || ||     ||   ||    |||  || | |||   ||||||||||| || || | ||||||||| |||||||||||||| |||||||||||||| |||||||| ||||
gtatgtgtttttattt--tgtaatcttgtccttctctctgtactaatacattttattt-------cccatgttagcacgtcactcatatatctccctaatactgt---agCAACTGGGGCACAGAAAATGATCCTGAATTCAAAGGTTACCATAATGGGAACTCAGACCCTCGTGGTTTTG

upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G125310_T01 (Zea mays), 3'ss of exon 5
gtaacaattatcatttattttgatgtcctctctatctgcaaaacaatctttctggcttacccatccctagttttgctgacaacgtgtaatgttccaaaaaattgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG
             |   | ||| |  ||  | | | ||    |    |||  |   |  |       | ||  |   || |     |||   |    |       |  ||||||||||| || || | ||| ||||| |||||||||||||| |||||||||||||| |||||||| ||||
------------gtgagtcttgttaccccgtatctttgtgcgatgcacttctttaatagcttgaa--tggtcatcaggaaattaattaacactttgtac-----ctgtagCAACTGGGGCACGGAAAATGACCCTGAATTCAAAGGTTACCATAATGGGAACTCAGACCCTCGTGGTTTTG

upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G08470.1 (Glycine max), 3'ss of exon 5
gtaacaattatcatttattttgatgtcctctctatctgcaaaacaatctttctggcttacccatccctagttttgctgacaacgtgtaatgttccaaaaaattgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG
                                  | || || | ||     ||   || |     || ||| |   |   |||    |||     || | | ||| |||| || ||||||||||| ||||||||||| |||||||| ||||||||||| || || ||||||||||| ||||
---------------------------------gtatggaatataaatacgctatatttctttatccgagtctcttttctaac----aat-----aagataatgt-acagTAATTGGGGTACTGAAAGTGATCCTGAGTTCAAAGGCTACCACAATGGCAATTCTGAACCTCGTGGCTTTG

upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G08470.2 (Glycine max), 3'ss of exon 5
gtaacaattatcatttattttgatgtcctctctatctgcaaaacaatctttctggcttacccatccctagttttgctgacaacgtgtaatgttccaaaaaattgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG-----------------------------
                                  | || || | ||     ||   || |     || ||| |   |   |||    |||     || | | ||| |||| || ||||||||||| ||||||||||| |||||||| ||||||||||| || || ||||||||||| ||||                             
---------------------------------gtatggaatataaatacgctatatttctttatccgagtctcttttctaac----aat-----aagataatgt-acagTAATTGGGGTACTGAAAGTGATCCTGAGTTCAAAGGCTACCACAATGGCAATTCTGAACCTCGTGGCTTTGGTATGTGATATTTCATTTCATTTAATTTG

upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G20000.3 (Glycine max), 3'ss of exon 5
gtaacaattatcatttattttgatgtcctctctatctgcaaaacaatctttctggcttacccatccctagttttgctgacaacgtgtaatgttccaaaaaattgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG
                                  |  | || | ||   |  |   || |  |||| |   | |  |  |      |||   |  || | | ||| |||| || ||||||||||| || ||||| || |||||||| ||||||||||| || || ||||||||||| ||||
---------------------------------gtaaggaatataaatatgttatatttcttatccttgtgtctcttatc------taacagt--aagataatgt-acagTAATTGGGGTACTGAAAGCGATCCAGAGTTCAAAGGGTACCACAATGGCAATTCTGAACCTCGTGGCTTTG

upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G08110.3 (Arabidopsis thaliana), 3'ss of exon 5
gtaacaattatcatttattttgatgtcctctctatctgcaaaacaatctttctggcttacccatccctagttttgctgacaacgtgtaatgttccaaaaaattg-ttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG
                                 |     | |  ||||  |     |  | | | |||   || | |   ||| | |  |       ||  ||  || ||||||||||||||| |||||||||||||| || |||||||| |||||||||||||| || |||||||||||||
----------------------------gtaagaaacaaatactaatcccttactttctctctttcctttcttggattg-aacatttcttacatatgaattttacttgcagCAACTGGGGTACAGAGAGTGATCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG

upper sequence: Vv06s0061g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ34107 (Selaginella moellendorffii), 3'ss of exon 4
gtaacaattatcatttattttgatgtcctctctatctgcaaaacaatctttctggcttacccatccctagttttgctgacaacgtgtaatgttccaaaa-aattgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG
                                                         |||       | |      ||    | | |||| ||            ||  ||||||||||| |||||||  ||||| ||||| ||||| ||||||||||| ||  | || ||||| || | ||
--------------------------------------------------------gtacgtgatgttggagagagtgttttcttctaatcttatgtgttgggctttgtagCAACTGGGGGACTGAGACGGATCCAGACTTTAAAGGCTACCACAATGGAAATGCTGATCCTCGCGGCTATG

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|110407172|gb|EC972769.1|EC972769
EST:     GAAAGAATCGTCTGGACCTTTAGTCAAAAGGCTACTATTGAGCTCACACA                         CAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAA
genomic: GAAAGAATCGTCTGGACCTTTAGTCAAAAGGCTACTATTGAGCTCACACAgtaacaatta ... attgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAA
EST: gi|22010774|gb|BQ795808.1|BQ795808
EST:     GAAAGAATCGTCTGGACCTTTAGTCAAAAGGCTACTATTGAGCTCACACA                         CAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAA
genomic: GAAAGAATCGTCTGGACCTTTAGTCAAAAGGCTACTATTGAGCTCACACAgtaacaatta ... attgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttacccatccctagttttgctgacaacgtgtaatgttccaaaaaattgttacagCAACTGGGGTACTGAGAGTGATCCTGACTTCAAAGGTTACCACAATGGGAACTCAGAACCTCGTGGATTTG
                  tgctgac  putative branch site (score: 2)
                                        aaaaaattgttaca  TA-rich tract