Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attgaattgtatatatgtttatgcctatatgcattatctggacttagttgatcactttcttggagcgcatgagcttactatgttgcaaatttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT

Basic information

species Glycine max
transcript GLYMA01G40210.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G40210.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ23242 (Selaginella moellendorffii), 3'ss of exon 1
attgaattgtatatatgtttatgcctatatgcattatctggacttagttgatcactttcttggagcgcatgagcttactatgttgcaaatttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT
                                    | ||||    || ||   | | |||||  | ||  |   |  |   |||   |||    || ||||| ||||||||||| || |||||||||||  |||||||||| || || ||||| ||||| |||||||| ||     | |||
-----------------------------------gtatggagc--gtcgaatccatgcttgggtctcacaattctcttggattg---attgctctgtagCCTCTTCTTCAAGCAAGAGATGGAGTTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCT

upper sequence: GLYMA01G40210.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ25249 (Selaginella moellendorffii), 3'ss of exon 1
attgaattgtatatatgtttatgcctatatgcattatctggacttagttgatcactttcttggagcgcatgagcttactatgttgcaaatttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT
                                    | ||||    || ||   | | |||||  | ||  |   |  |   |||   |||    || ||||| ||||||||||| || ||||| |||||  |||||||||| || || ||||| ||||| |||||||| ||     | |||
-----------------------------------gtatggagc--gtcgaatccatgcttgggtctcacaattctcttggattg---attgctctgtagCCTCTTCTTCAAGCAAGAGATGGAATTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCT
















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|209719919|gb|BW666002.1|BW666002
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTT-CTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|192309196|gb|FG999437.1|FG999437
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|209713657|gb|BW679369.1|BW679369
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CC-TTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|21600628|gb|BQ610959.1|BQ610959
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|192326131|gb|FK016958.1|FK016958
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|193403248|gb|FK369446.1|FK369446
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|298198680|gb|HO042043.1|HO042043
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGACTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|151402581|gb|EV272394.1|EV272394
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCGATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|298181019|gb|HO022458.1|HO022458
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCGGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|192299066|gb|FG990394.1|FG990394
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|151411975|gb|EV281786.1|EV281786
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|213608988|gb|DB962914.1|DB962914
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|192315185|gb|FK010009.1|FK010009
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCGG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|192325013|gb|FK015434.1|FK015434
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|209712282|gb|BW668476.1|BW668476
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|208120468|gb|GD917967.1|GD917967
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|208114443|gb|GD908960.1|GD908960
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGA
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGA
EST: gi|15813605|gb|BI785880.1|BI785880
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|213597753|gb|DB960310.1|DB960310
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|209715505|gb|BW682171.1|BW682171
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|208232265|gb|GE029050.1|GE029050
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGA
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGA
EST: gi|192315186|gb|FK010010.1|FK010010
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCGG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|8827780|gb|BE211510.1|BE211510
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|213614589|gb|DB969138.1|DB969138
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
EST: gi|298183805|gb|HO029018.1|HO029018
EST:     GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAG                         CCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC
genomic: GAAGAAAAGACAATGGGATTGTGGGAAGCTTTTCTCAATTGGCTACGCAGgtaagcttca ... ttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgatcactttcttggagcgcatgagcttactatgttgcaaatttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT
                                         aaatttgatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attgaattgtatatatgtttatgcctatatgcattatctggacttagttgatcactttcttggagcgcatgagcttactatgttgcaaatttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA