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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcgatatctgattcctcaattaaagttgtgagggaacatgagtctgctcatgtagtaataaatattgttggaaccaacaaggtcacttaaatttttcatatctctgaccttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGTTTTGGCAATCATTATCCAAGACATGTCCACCATAGAGGTGCATCTATCC

Basic information

species Vitis vinifera
transcript Vv12s0035g02180.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g02180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G00710.1 (Glycine max), 3'ss of exon 3
gtatgcgatatctgattcctcaattaaagttgtgagggaacatgagtctgctcatgtagtaataaatattgttgg--aaccaacaaggtcacttaaat-ttttcatatctctgaccttctg-gcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGTTTTGGCAATCATTATCCAAGACATGTCCACCATAGAGGTGCATCTATCC
||  | | ||   | | |    |||    |  | |  ||  || | | |  | ||| |   | || | ||    |  || |  |    |    ||||| | ||  | | |      ||||| | |||||||||||||||| || || || ||||| || ||||||||||||| ||||||||| ||||||||||||| |||||| |||||||||||||| ||||| |
gtgggtgctac--ggtgctagtattctgctccttaatgataataattataattatgaaaaga-aattcttacaagtcaagcggctgtctgggctaaatatctttttcttttcccttttctgtgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATATTGTAGGTTTTGGTAATCATTATCCAAAACATGTTCACCATAGAGGTGCGTCTATAC

upper sequence: Vv12s0035g02180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G40090.1 (Glycine max), 3'ss of exon 3
gtatgcgatatctgattcctcaattaaagttgtgagggaacatgagtctgctcatgtagtaataaatattgttggaaccaacaaggtcactta--aatttttcatatctctgaccttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGTTTTGGCAATCATTATCCAAGACATGTCCACCATAGAGGTGCATCTATCC
                               ||| | |    |   |||||||   || ||||||  ||  |   |  |||     |    ||  ||| ||||       ||    | | | |||||||||||||||| || || || ||||| || ||||||||| ||| ||||||||| ||||||||||||| |||||| |||||||||||||| ||||| |
-------------------------------gtgggtgctagttt-tctgctc-cataataataatgatgatgtaatacaagtgtctgggctaataatctttctctgtcttggtgattttgtagATTGATTACATCCTTGGGAAGAACCCTCGGAAAATGAGCTATGTTGTAGGTTTTGGTAATCATTATCCAAAACATGTTCACCATAGAGGTGCGTCTATAC

upper sequence: Vv12s0035g02180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G13080.1 (Glycine max), 3'ss of exon 5
gtatgcgatatc-tgattcctcaattaaagttgtgag-ggaacatgagtctgctcatgtagtaataaatattgttggaaccaacaagg--tcacttaaatttttcatatctctgaccttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGTTTTGGCAATCATTATCCAAGACATGTCCACCATAGAGGTGCATCTATCC
|| || |||||  || | | | ||   |  |  ||       |||    ||  || |   || |   ||||   |   |     | ||  | | ||   |||| | | |    |   || | |||||||||||||||||| || || || ||  | || ||||||||| ||| ||||||||| |||||||| |||| |||||| ||||||||||| |||||||| |
gtgtgtgatattgtgctactttaagagagatgatgtctatggcatccaactcttcgtaatgttaatgatatcactaagaggtgtatggactaatttttcttttcccttttgtcggtgtttttgcagATTGATTACATCCTTGGAAATAACCCAAGGAAAATGAGCTATGTTGTAGGTTTTGGTAATCATTACCCAAAACATGTTCACCATAGAGGAGCATCTATAC

upper sequence: Vv12s0035g02180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G02160.1 (Glycine max), 3'ss of exon 5
gtatgcgatat-ctgattcctcaattaaagttgtgaggg-aacatgagtctgctcatgtagtaataaatattgttg-gaaccaacaaggtcacttaaatttttcatatctctgaccttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGTTTTGGCAATCATTATCCAAGACATGTCCACCATAGAGGTGCATCTATCC
|| || ||||| ||| | | | ||   |  |  ||       ||| |  ||  || |   || ||   |||   |  ||     |  ||  | ||    |||||   ||| ||   || || ||||||||||||||||| || || || ||  | || ||||| ||| | | ||||||||| |||||||| |||| ||| |||||||||||||| |||||| | |
gtgtgtgatattctgctactttaagagagatgatgtctatggcatcaaactcttcctaatgttatcg-tatcactatgaggtgtctgggctaatttttcttttctcttctgtgtgtttttg-cagATTGATTACATCCTTGGAAATAACCCAAGGAAAATGAGTTATGTCGTAGGTTTTGGTAATCATTACCCAAAACACGTCCACCATAGAGGAGCATCTGTAC

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|352777372|gb|FQ474006.1|FQ474006
EST:     TAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTTGAAAGATGAGCTATATTGCAGGT
genomic: TAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110715902|gb|EE094479.1|EE094479
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|33402366|gb|CF207993.1|CF207993
EST:     GCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110380829|gb|EC946125.1|EC946125
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110372986|gb|EC937186.1|EC937186
EST:     GCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|33402286|gb|CF207913.1|CF207913
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|33405553|gb|CF211180.1|CF211180
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|352782136|gb|FQ470038.1|FQ470038
EST:     CGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGC-AAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: CGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110703053|gb|EE079560.1|EE079560
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110716453|gb|EE091450.1|EE091450
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|33409937|gb|CF215564.1|CF215564
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTG
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTG
EST: gi|351014434|gb|FQ437436.1|FQ437436
EST:     CAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: CAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110715796|gb|EE094253.1|EE094253
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|33407421|gb|CF213048.1|CF213048
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110396556|gb|EC962246.1|EC962246
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110378447|gb|EC943580.1|EC943580
EST:     GAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
EST: gi|110378050|gb|EC943162.1|EC943162
EST:     GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAG                         ATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT
genomic: GACCTAATTTCTATTCAACTGAAGTCCTGCGTGAATTTGCCAAGACCCAGgtatgcgata ... cttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgttggaaccaacaaggtcacttaaatttttcatatctctgaccttctggcagATTGATTACATCCTCGGCAAAAATCCTCGAAAGATGAGCTATATTGCAGGTTTTGGCAATCATTATCCAAGACATGTCCACCATAGAGGTGCATCTATCC
                                      ctctgac  putative branch site (score: 3)
                                            ccttct  CT-rich tract
                     acttaaatttttcata  TA-rich tract