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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggaatcttacatgaataaatatttttattgggtttgtctcatatacaaataatgtggatcatttaacattcaaaatcttgagcagATAACAAAGGCTGGTGAGATTGGGTCTTCAACCATGCCTCACAAAGTGAATCCTATTGATTTCGAAAATAGTGAAGGTAATCTTGGTAAGGCTAATGGAG

Basic information

species Vitis vinifera
transcript Vv13s0019g03330.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g03330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g19930.2 (Oryza sativa), 3'ss of exon 5
---------------------------------------gtaaggaatct--tacatgaataaatatttttattgggtttgtctcatatacaaataatgtggatcatttaacattcaaaatcttgagc-agATAACAAAGGCTGGTGAGATTGGGTCTTCAACCATGCCTCACAAAGTGAATCCTATTGATTTCGAAAATAGTGAAGGTAATCTTGGTAAGGCTAATGGAG
                                         ||    | |  |||||      | |   ||| |||  |    |  || |       ||    |  |  | | ||| |||| |||  | |||||  ||||||||||||  |||| ||||| || |||||||||||||| ||||| |||||||||||||||||||| || ||| |   ||  || |||||  
gtaatactaacatgcaaggactgttctttaaggtttggttgaattcgtttagtacatagtgggaaaaacttagtggtctacagttttagattctgtttgaacttactgcatccttccaaatgttgttccagATAGTAAAGGCTGGTGAAGTTGGATCTTCCACAATGCCTCACAAAGTCAATCCCATTGATTTCGAAAATAGTGACGGCAATTTGACTATAGCCAATGGTA

upper sequence: Vv13s0019g03330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G42130.1 (Glycine max), 3'ss of exon 5
gtaaggaatcttacatga-ataaatatttttattgggtttgtctcatatacaaataatgtggatcatttaacattcaaaatctt--gagcagATAACAAAGGCTGGTGAGATTGGGTCTTCAACCATGCCTCACAAAGTGAATCCTATTGATTTCGAAAATAGTGAAGGTAATCTTGGTAAGGCTAATGGAG
|| ||   ||||| ||   |  ||||     | |  |    | |  | ||  |         ||| ||| |  | |||||| ||    |||||  || |||||||| ||||||||||| ||||| ||||||||||||||||||||||||||||| || || || ||||||||||| |||   ||||||||||
gtgagctttcttatatagtagcaataaccagactatggagctatactttaagagcggcaataatcttttcatttacaaaattttttatgcagACCACCAAGGCTGGAGAGATTGGGTCATCAACTATGCCTCACAAAGTGAATCCTATTGATTTTGAGAACAGCGAAGGTAATCTAGGTGTAGCTAATGGAG

upper sequence: Vv13s0019g03330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G06780.1 (Glycine max), 3'ss of exon 5
gtaaggaatcttacatgaataaat-atttttattgggtttgtctcatatacaaataatgtggatcatttaacattcaaaa--tcttgagcagATAACAAAGGCTGGTGAGATTGGGTCTTCAACCATGCCTCACAAAGTGAATCCTATTGATTTCGAAAATAGTGAAGGTAATCTTGGTAAGGCTAATGGAG
|| ||   ||||| |||   |||| |     | |  | |  | |  | ||  |  |      ||| ||| |  | |||||  | ||  |||||  || |||||||| ||||||||||| ||||| ||||||||||||||||||||||||||||| || || || ||||||||||| |||   ||||||||||
gtgagctttcttatatggtaaaattaaccagagtatggtgctatactttaagagcagcaataatcttttcatttacaaaactttttatgcagACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAATCCTATTGATTTTGAGAACAGCGAAGGTAATCTAGGTGTAGCTAATGGAG

upper sequence: Vv13s0019g03330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G28590.1 (Glycine max), 3'ss of exon 7
gtaaggaatcttacatg--aataaatattt--ttattgggtttgtctcatata----caaataatgtggatcatttaacattcaaaa--tcttgagcagATAACAAAGGCTGGTGAGATTGGGTCTTCAACCATGCCTCACAAAGTGAATCCTATTGATTTCGAAAATAGTGAAGGTAATCTTGGTAAGGCTAATGGAG---------
|| ||   ||| |  |   |  ||| |  |   |||   | |   ||   | |    ||||| |     ||| ||| |  | |||||  | ||  ||  |  || |||||||| ||||||||||| ||||| ||||||||||||||||||||||||||||| || || || ||| ||||||| |||   ||||||||||         
gtgagctttctgatgtagtagcaaaaacctgagtataatgctatactttgagagtgacaaatgacaataatcttttcatttacaaaactttttatgccaaccaccaagGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAATCCTATTGATTTTGAGAACAGCGAACGTAATCTAGGTGTAGCTAATGGAGGACTGTCTC

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|37187463|gb|CF606816.1|CF606816
EST:     ATTTTGATAGAGACATATGGAGCTATATTTCTGTAGGTTACTTTAAGCAG                         ATAACAAAGGCTGGTGAGATTGGGTCTTCAACCATGCCTCACAAAGTGAAT
genomic: ATTTTGATAGAGACATATGGAGCTATATTTCTGTAGGTTACTTTAAGCAGgtaaggaatc ... tcttgagcagATAACAAAGGCTGGTGAGATTGGGTCTTCAACCATGCCTCACAAAGTGAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttgtctcatatacaaataatgtggatcatttaacattcaaaatcttgagcagATAACAAAGGCTGGTGAGATTGGGTCTTCAACCATGCCTCACAAAGTGAATCCTATTGATTTCGAAAATAGTGAAGGTAATCTTGGTAAGGCTAATGGAG
                              atttaac  putative branch site (score: 3)
                              atttaacattcaaaat  TA-rich tract