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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATTCTTACACTCAAATGAGGTACACATTTTTGGTTATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttctttcctatgcttttaatcttcctcactttcctcaaataaataaaatgtaatataaaaacaattatcattagcccataacaattgtcattt...

Basic information

species Vitis vinifera
transcript Vv14s0171g00490.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0171g00490.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA19G24250.1 (Glycine max), 5'ss of exon 3
GGATTCTTACACTCAAATGAGGTACACATTTTTGGTTATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttctttcctatgcttttaatcttcctcactttcctcaa-ataaataaaatgtaatataaaaacaattatcattagcccataacaattgtcattt-
||||||||||   || |||| || ||||||||||| ||||||||||| || ||||| ||||| || |||||||| ||  | ||||||||||| || ||  |      |  |||||   ||  ||| ||||| ||   | ||||  | || | |||   |||  | || | | ||     ||| | |  
GGATTCTTACCAGCAGATGAAGTTCACATTTTTGGCTATGCAAGGACAAAAATATCTGATGATGAATTGAGAAACCGGTTGCGTGGgtgagactttttgtcataaactaaaatctatatcttttttctcaagatttctgaaata-agtaaataaatt-ttacaaatatcacttacagcctgttactgc
















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|30128455|gb|CB913794.1|CB913794
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGG                         ATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
EST: gi|110686452|gb|EE064108.1|EE064108
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGG                         ATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
EST: gi|161717585|gb|FC065623.1|FC065623
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGTATACGTGG                         ATACCTTATCAACAAGGATGCTACATCTGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
EST: gi|294965944|gb|GW839283.1|GW839283
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGG                         ATGCCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
EST: gi|37190597|gb|CF609946.1|CF609946
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGG                         ATACCTTATCAACAAGGATGCTACATCTGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
EST: gi|110364929|gb|EC928538.1|EC928538
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGTATACGTGG                         ATACCTTATCAACAAGGATGCTACATCTGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
EST: gi|30128024|gb|CB913363.1|CB913363
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGG                         ATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
EST: gi|161719304|gb|FC068268.1|FC068268
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGTATACGTGG                         ATACCTTATCAACAAGGATGCTACATCTGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA
EST: gi|110372969|gb|EC937167.1|EC937167
EST:     TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGTATACGTGG                         ATACCTTATCAACAAGGATGCTACATCTGAGCATTCAGAAGAAGTATCTAA
genomic: TATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttc ... atgtctgcagATACCTTATCAACAAGGATGCTACATCCGAGCATTCAGAAGAAGTATCTAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATTCTTACACTCAAATGAGGTACACATTTTTGGTTATGCAAGGACCAAGATATCAGATGACGAGTTGAGAAATCGCATACGTGGgtgagatttctttcctatgcttttaatcttcctcactttcctcaaataaataaaatgtaatataaaaacaattatcattagcccataacaattgtcattt

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaaa