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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttaattgcctatacaatatttcctttgcatgtgaaaattattaacttttcatgaattgcagCCGGAGAACTTGCTACTTACTGCAGATGGACATATCAAAATTGCTGATTTTGGGAGTGTAAAGCCTATGCAGGATAGTCTAATTACCGTCCTTCCCAATG

Basic information

species Vitis vinifera
transcript Vv13s0074g00100.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 4
---gtattttaat-tgcctatacaatatttcctttgcatgtgaaaat-----tattaacttttcatgaattgcagCCGGAGAACTTGCTACTTACTGCAGATGGACATATCAAAATTGCTGATTTTGGGAGTGTAAAGCCTATGCAGGATAGTCTAATTACCGTCCTTCCCAATG
   ||  | |    ||  |||||   ||         || ||   ||     |||||| |||   | || ||||||| ||||||||  ||||||| || || |||||||| ||||| || |||||||||||||| ||||||||||||||||| | ||| || |||||||| ||||
gtagttctgtggcatgattatactgcatcattgccatatatggccatgtgaatattaaatttct-tcaactgcagCCAGAGAACTTATTACTTACCGCTGAAGGACATATTAAAATAGCCGATTTTGGGAGTGTGAAGCCTATGCAGGATAGCCAAATAACTGTCCTTCCAAATG

upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 4
gtattttaat----tgcctatacaatatttcctttgcatgtgaaaat-----tattaacttttcatgaattgcagCCGGAGAACTTGCTACTTACTGCAGATGGACATATCAAAATTGCTGATTTTGGGAGTGTAAAGCCTATGCAGGATAGTCTAATTACCGTCCTTCCCAATG
||| ||   |    ||  |||||   ||         || ||   ||     |||||| |||   | || ||||||| ||||||||  ||||||| || || |||||||| ||||| || |||||||||||||| ||||||||||||||||| | ||| || |||||||| ||||
gtagttccgtggcatggttatactgcatcattgccatatatggctatgtgaatattaaatttct-tcaactgcagCCAGAGAACTTATTACTTACAGCTGAAGGACATATTAAAATAGCCGATTTTGGGAGTGTGAAGCCTATGCAGGATAGCCAAATAACTGTCCTTCCAAATG

upper sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 4
--------gtattttaattgcctatacaatatttcctttgca-tgtgaaaattattaacttttcatgaattg-cagCCGGAGAACTTGCTACTTACTGCAGATGGACATATCAAAATTGCTGATTTTGGGAGTGTAAAGCCTATGCAGGATAGTCTAATTACCGTCCTTCCCAATG
           ||  ||| || | |    |||   |||  || |        ||     ||||| |||| ||  ||||||||||  || | || ||| |||||||||| || || ||||| |||||||| ||||||||||| ||||||||||| |  || || || || || ||||
gtagtttctctttcgaatagcttctcttttatggtcttaacaatagctgtgctaagtgtttttcttgaaatggtagCCGGAGAATCTGTTGCTGACTTCAGATGGACACATTAAGATTGCGGATTTTGGAAGTGTAAAGCCGATGCAGGATAGCCAGATCACAGTTCTACCTAATG

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|161717324|gb|FC068850.1|FC068850
EST:     ATGCTCTTGAATATATTCATAGTCTAGGATTGATACACCGGGATATTAAG                         CCGGAGAACTTGCTACTTACTGCAGATGGACATATCAAAATTGCTGATTTT
genomic: ATGCTCTTGAATATATTCATAGTCTAGGATTGATACACCGGGATATTAAGgtattttaat ... tgaattgcagCCGGAGAACTTGCTACTTACTGCAGATGGACATATCAAAATTGCTGATTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctatacaatatttcctttgcatgtgaaaattattaacttttcatgaattgcagCCGGAGAACTTGCTACTTACTGCAGATGGACATATCAAAATTGCTGATTTTGGGAGTGTAAAGCCTATGCAGGATAGTCTAATTACCGTCCTTCCCAATG
                                tattaac  putative branch site (score: 1)
                                      cttttcat  CT-rich tract
                           aaaattattaactttt  TA-rich tract