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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGATTATGCTGGTGATGATGACGAGTATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaatcatcatgtaccttttcttttagggtccttttgggtgcttttcaaaacatgttcttttctttctctgtaatgataatttgatttgcaatt...

Basic information

species Vitis vinifera
transcript Vv11s0052g00880.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0052g00880.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT4G30210.1 (Arabidopsis thaliana), 5'ss of exon 3
GATGATTATGCTGGTGATGATGACGAGTATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaatcatcatgtaccttttcttttagggtccttttgggtgcttttcaaaacatgttctttt--ctttctctgtaatgataatttgatttgcaatt---
|||||||| || | ||||||||| |||||||| |||||||||||||| ||   | |||||||||||||||| || |||| || ||  | | |   |    |||  ||| || ||  | |  ||  |       |  ||||||| |  ||  ||  ||  |  ||  | || |    ||    
GATGATTACGCGGCTGATGATGATGAGTATGAGGAGAAATTGAAGAAAGAGGATGTGGCTTTCTTCTTCTTAGCCACgttagttttcttagc---tgatcttttgtttgggatcggtataagtattaaatttgatttgttcttgtggctgacttggttttactatctggaatctggatgtag
















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|352773726|gb|FQ472508.1|FQ472508
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCC
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCC
EST: gi|37183853|gb|CF603207.1|CF603207
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCG
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCG
EST: gi|352782404|gb|FQ470307.1|FQ470307
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTT-TTGGCTAC                         CTATGGAGATGGTGAGCCCACCGATAACGCG
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCG
EST: gi|352768454|gb|FQ469630.1|FQ469630
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCGGCCAAGGTTT-ATAAGTGGT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCA-GGTTTTATAAGTGGT
EST: gi|161721502|gb|FC069730.1|FC069730
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
EST: gi|352768225|gb|FQ469400.1|FQ469400
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
EST: gi|352774217|gb|FQ474740.1|FQ474740
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
EST: gi|352776602|gb|FQ474904.1|FQ474904
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCT-CTTGGCTAC                         CTATGGAGATGGTGAGC
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGC
EST: gi|352777575|gb|FQ466628.1|FQ466628
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
EST: gi|352781981|gb|FQ469279.1|FQ469279
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCCACCGATAACGCGGCCAGGTTTTATAAGTGGTT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
EST: gi|71863842|gb|DT012897.1|DT012897
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
EST: gi|352782151|gb|FQ470053.1|FQ470053
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
EST: gi|352772720|gb|FQ473758.1|FQ473758
EST:     TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTAC                         GTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT
genomic: TATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaa ... aattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTT

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATGATTATGCTGGTGATGATGACGAGTATGAAGAGAAATTGAAGAAGGAAACTTTGGCTTTCTTCTTCTTGGCTACgtaagcttaatcatcatgtaccttttcttttagggtccttttgggtgcttttcaaaacatgttcttttctttctctgtaatgataatttgatttgcaatt

- - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaaca