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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcgttgcagagttattttttattatattgttactatgtcaagttctaaacactaatctatgaacag

Basic information

species Glycine max
transcript GLYMA03G33000.6
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G33000.6 (Glycine max), 5'ss of exon 6
lower sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 4
GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatc--gttgcagagttattttttattatattgtt-actatgtcaagttctaaacactaatctatgaacag--------
||| ||||||| || |||||||||||||||||||||||||| |||||||   ||||||| || |||||   |||    |||||      || ||   | |    || | |||   | || | |    |||| || |  |||         
GTGGTTGAGATAGGAAAAGGGAGCAAGGTGAAATATGAACTCGACAAAACTACGGGTCTCATTAAGgtataaatttgattgcattaactttcttcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcag

upper sequence: GLYMA03G33000.6 (Glycine max), 5'ss of exon 6
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 5'ss of exon 4
GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcgttgcagagttattttttattatattgttactatgtcaa------gtt-ctaaacacta-atctatgaacag
||| |||| || ||||||||||||||||||||||||||||| ||||| ||| | || || ||||||||    |    | |  |   ||||||     || | ||   |  ||||      ||| |||||   || ||  |||  |||
GTGGTTGAAATAGGGAAAGGGAGCAAGGTGAAATATGAACTTGACAAGAAAACTGGACTGATCAAGgtaattaggtgttctaatccatttttctaggtactctttgcagatcaacaattggttgctaaattttatattcatgtgcag
















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|207831666|gb|GD801720.1|GD801720
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|193320747|gb|FK283132.1|FK283132
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAAATTATGGGTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAA-TTATGGGTT
EST: gi|151404690|gb|EV274504.1|EV274504
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|298199436|gb|HO042799.1|HO042799
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGGCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|7925031|gb|AW831057.1|AW831057
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|8827754|gb|BE211484.1|BE211484
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|27446381|gb|CA953504.1|CA953504
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|192324459|gb|FK015810.1|FK015810
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|5510301|gb|AI856743.1|AI856743
EST:     AGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCCGGTCTTATTCA-G                         ATCGACCGGGGTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTT
genomic: AGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTAT-CAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTT
EST: gi|10236851|gb|BE805739.1|BE805739
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|208275603|gb|GE078223.1|GE078223
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|16105384|gb|BI893124.1|BI893124
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|192296495|gb|FG989111.1|FG989111
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|207702226|gb|GD682981.1|GD682981
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|9986811|gb|BE660919.1|BE660919
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
EST: gi|17022987|gb|BM094021.1|BM094021
EST:     AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAG                         ATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT
genomic: AAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcg ... ctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGATTGAGATTGGGAAAGGGAGCAAGGTGAAATATGAACTGGACAAAAAATCGGGTCTTATCAAGgttgcaatcgttgcagagttattttttattatattgttactatgtcaagttctaaacactaatctatgaacag

- - - - - - - - -  GGAGCA
- - - - - - - - - -  AGCAAG