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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTCAATGTTGATGATTTTGAAGATTATATGAATCCAAATAGTTCTGTATATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTGgtatgtctctaactccaaactccctgtcctcttccattcccttgttttattttgattcacttttggacggaccccatcttatgtgttatccgttttttga...

Basic information

species Glycine max
transcript GLYMA08G27730.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G27730.3 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0083g01000.t01 (Vitis vinifera), 5'ss of exon 2
TTTCAATGTTGATGATTTTGAAGATTATATGAATCCAAATAGTTCTGTATATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTGgtatgtctctaactccaaactccctgtcctcttccattcccttgttttattttgattcacttttggacggaccccatcttatgtgttatccgttttttga----
|||    ||||| |||||||| |||||| | ||||| || |||||  ||||||||||||||||||| ||||||||||| || |||||||| |||| |||||||| | ||  | | |    |   |     |||  |||    |    |  |||  |  |  | |     ||    ||   |    | |  |     | ||    
TTTGCGGGTTGAGGATTTTGACGATTATGTAAATCCCAACAGTTCCATATATAGGAACTGTATGTGCCTCAGTTGCTTTGTTCAGAACTTCTTGAATGTGgtatatttcatagttc----ttgttactaacttttatttttatcaaatccttttgtgaaagtgtcatttgattgaattacaaaattcaagcacacctggaaagg
















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|192304399|gb|FG996721.1|FG996721
EST:     ATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTG                         TATGAATCAATATTCCGTAGAGGGGAAGTGCATGCGATTCCTTCATCTATT
genomic: ATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTGgtatgtctct ... caaatttcagTATGAATCAATATTCCGTAGAGGGGAAGTGCATGCGATTCCTTCATCTATT
EST: gi|192305342|gb|FG994024.1|FG994024
EST:     ATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTG                         TATGAATCAATATTCCGTAGAGGGGAAGTGCATGCGATTCCTTCATCTATT
genomic: ATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTGgtatgtctct ... caaatttcagTATGAATCAATATTCCGTAGAGGGGAAGTGCATGCGATTCCTTCATCTATT
EST: gi|192302111|gb|FG995231.1|FG995231
EST:     ATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTG                         TATGAATCAATATTCCGTAGAGGGGAAGTGCATGCGATTCCTTCATCTATT
genomic: ATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTGgtatgtctct ... caaatttcagTATGAATCAATATTCCGTAGAGGGGAAGTGCATGCGATTCCTTCATCTATT
EST: gi|8403536|gb|BE059170.1|BE059170
EST:     ATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTG                         TATGAATCAATATTCCGTAGAGGGGAAGTGCATGCGATTCCTTCATCTATT
genomic: ATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTGgtatgtctct ... caaatttcagTATGAATCAATATTCCGTAGAGGGGAAGTGCATGCGATTCCTTCATCTATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTCAATGTTGATGATTTTGAAGATTATATGAATCCAAATAGTTCTGTATATAGGAACTGTATGTGTCTCAGTTGCTTCGTACAGAACTTTTTGACTGTGgtatgtctctaactccaaactccctgtcctcttccattcccttgttttattttgattcacttttggacggaccccatcttatgtgttatccgttttttga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccatc