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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTGAAGTTATTTTTGGACAACAGAGAGTTAGGCTTTACATTATTGCTGGAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgattctttatatttctttattataatttatttttaagtttcttatgatcctatgtacttagacttatctttaataatttcttatatagtagttt...

Basic information

species Glycine max
transcript GLYMA02G08170.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G08170.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G13570.2 (Arabidopsis thaliana), 5'ss of exon 6
CCTTGAAGTTATTTTTGGACAACAGAGAGTTAGGCTTTACATTATTGCTGGAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgattctttat--atttctttattataatttatttttaagtttcttatgatcctatgtacttagacttatctttaataatttcttatatagtagttt
  | ||  || ||||  | || || |||||  | ||||||||| ||||||| |||| ||| |||||||  ||||| || ||||| || ||||||||||||||  ||  ||    ||  | || |  ||   |  || | | |   | | | ||||  || | ||  |    || |  |  |  | || |             
TATAGAGTTTGTTTTCAGGCAGCAAAGAGTACGACTTTACATTGTTGCTGGGGTGACAGAAGATACAGTTTTTGCACCACTTACAAAGAAGGAAATCAGTgtgcgtatttaacaattaacttgtggatctgatcttgtctgtgtatgtatgatgagtctct-tatcttcttttgttgtggaatacttgtag-----------

upper sequence: GLYMA02G08170.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv13s0019g04310.t01 (Vitis vinifera), 5'ss of exon 5
CCTTGAAGTTATTTTTGGACAACAGAGAGTTAGGCTTTACATTATTGCTGGAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgattctttatatttctttattataatttatttttaagtttcttatgatcctatgtacttagacttatctttaataatttcttatatagtagttt--
| ||||||  || ||||||||||| || ||  |||||||||| || ||||| ||||| |||||||| || ||||| || ||||||||||| || |||||||||| || | || |   |||   || | | | |   ||||||| |   |    | ||  ||  ||    |  |    || || ||      |   ||     
CATTGAAGAGATATTTGGACAACAAAGGGTGCGGCTTTACATAATCGCTGGTGTGAAGGATGATACTGCCTTTGCGCCACTTACCAAAAAAGAGATCAGTgtatatgctcctctccttttaaatactgtcaata--ttttaagataaatccatttctcagttttttttttctttgcaaagaagtttaccagttaaagaggaa
















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|151403573|gb|EV273383.1|EV273383
EST:     GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAA-GGAAATCAGT                         GAAATAGCATG
genomic: GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgatt ... ttacctgcagGAAATAGCATG
EST: gi|13789427|gb|BG652018.1|BG652018
EST:     GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGT                         GAAATAGCATGGCACCGGCTTGATGAACTTCAACCAGCAAGTGATGAAGTG
genomic: GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgatt ... ttacctgcagGAAATAGCATGGCACCGGCTTGATGAACTTCAACCAGCAAGTGATGAAGTG
EST: gi|5509077|gb|AI855635.1|AI855635
EST:     CAGTGACAGATGATACAGCATTTGCTCCTCTTACTAAAAAGGAAATCAGT                         GAAATAGCATGGCA-CGGCTTCGATGAACTTCAA-CAGCAAAGTGATGAAG
genomic: GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgatt ... ttacctgcagGAAATAGCATGGCACCGGCTT-GATGAACTTCAACCAGC-AAGTGATGAAG
EST: gi|298176465|gb|HO026700.1|HO026700
EST:     GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGT                         GAAATAGCATGGCACCGGCTTGATGAACTTCAACCAGCAAGTGATGAAGTG
genomic: GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgatt ... ttacctgcagGAAATAGCATGGCACCGGCTTGATGAACTTCAACCAGCAAGTGATGAAGTG
EST: gi|22933458|gb|BU550597.1|BU550597
EST:     GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGT                         GAAATAGCATGGCACCGGCTTGATGAACTTCAACCAGCAAGTGATGAAGTG
genomic: GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgatt ... ttacctgcagGAAATAGCATGGCACCGGCTTGATGAACTTCAACCAGCAAGTGATGAAGTG
EST: gi|151407825|gb|EV277640.1|EV277640
EST:     GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGT                         GAAATAGCATGGCACCGGCTTGATGAACTTCAACCAGCAAGTGATGAAGTG
genomic: GAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgatt ... ttacctgcagGAAATAGCATGGCACCGGCTTGATGAACTTCAACCAGCAAGTGATGAAGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTTGAAGTTATTTTTGGACAACAGAGAGTTAGGCTTTACATTATTGCTGGAGTGAAAGATGATACAGCATTTGCTCCTCTTACCAAAAAGGAAATCAGTgtatgtgattctttatatttctttattataatttatttttaagtttcttatgatcctatgtacttagacttatctttaataatttcttatatagtagttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA