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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTACCCACAAGGAAGGATGTCACACCATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgtttcttctacacatttgtacacaaaactttcaaggtttcccattttcttaatatttcgttgtaaagttgatgatttattcttgtacacataca...

Basic information

species Glycine max
transcript GLYMA03G00920.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G00920.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g59930.1 (Oryza sativa), 5'ss of exon 4
ATGTACCCACAAGGAAGGATGTCACACCATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgtttct----tctacaca-tttgtacacaaaactttcaaggtttcccattttctt----aatatttcgttgtaaagttgatgatttattc-----ttgtacacataca---------------------------------------------------------------------------------------
|||||||| |||||||| |||||||||||||||||||| |||   |||||||| ||  | || ||||| |||||||||||   | | | |    || |  ||  ||||    ||  || | | || |    |||  ||     |   ||| ||  ||    | ||| ||||  |     || |   | ||||                                                                                       
ATGTACCCTCAAGGAAGAATGTCACACCATTTCCGTGAAATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgttgttttctttctgttccaagcaacttgtgt-taagtctataatgggtgtttattgactctgaaagagttttgtgttatctattatgctttagccagcatttatgtgcttacatttattgattaggtgacattcacaattgaattgggtgctcatttgtctttggtttatgagtttaacatggtttcttctctgttctag

upper sequence: GLYMA03G00920.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G157263_T01 (Zea mays), 5'ss of exon 4
ATGTACCCACAAGGAAGGATGTCACACCATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgtttcttctaca-cat-ttgtacacaaaactttcaaggtttcccattttcttaatatttcgttgtaaagttgatgatttattcttgtacacataca-
||||| || |||||||| ||||| || |||||||||||||||   |||||||| ||  | || ||||| |||||||||||| | | |    ||  | ||  |||||      || |   || ||   | | |||    |      ||  | | || |     |    |||     ||    
ATGTATCCCCAAGGAAGAATGTCTCATCATTTCCGTGAGATGAAAGTTGGTGATTATATGTCTGTGAAGGGACCTAAGgtatacggtatacctgtatcacattgtattttgtacgt---agattctgcctgttccatgtccgaacttacacactttacatgctccatttggttctatgtca

upper sequence: GLYMA03G00920.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G17770.1 (Arabidopsis thaliana), 5'ss of exon 4
ATGTACCCACAAGGAAGGATGTCACACCATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgta-----------aatgtttcttctacacatttgtacacaaa-actttcaaggtttcccattttcttaatatttcgttgtaaagttgatgatttattcttgtacacataca--
||||| || |||||| ||||||| || |||||| | |||||||||||||| ||| | ||| |||| || ||||| ||||||            |||| |    |||    |  |||||||  |   |     ||    | ||| ||   || ||     |   ||  || ||||||    |  || |     
ATGTATCCGCAAGGACGGATGTCTCATCATTTCAGGGAGATGCGTGTTGGAGACCATCTTGCCGTAAAGGGACCAAAGgtacctttaagttagatgtcttgcttacttgatcttacacaagcaacattgttattctatactttttttgaatctca--aaactttttttgttttattaccctttacttgtcag

upper sequence: GLYMA03G00920.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0056g01150.t01 (Vitis vinifera), 5'ss of exon 4
ATGTACCCACAAGGAAGGATGTCACACCATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgtttcttctacacatttgtacacaaaactttcaaggtttcccattttcttaatatttcgttgtaaagttga----tgatttattcttgtacacataca--
||||| |||||||||||||||||||| ||||| || ||||||||||| ||||| || ||  | || || ||||| |||||| |||||   |        ||  | |  ||  |    ||  |     ||   |  ||  || ||| |||  ||||    ||    ||||    |  ||      
ATGTATCCACAAGGAAGGATGTCACATCATTTTCGAGAGATGCGTGTAGGTGATTATCTGGCTGTAAAGGGACCCAAGgtagatgttctctt-----gctttcatattaacttcgttagactggtttttggttgcatgctt-gttataagattgaattgtgccccattccatgaggcagtggta

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|192301598|gb|FG994782.1|FG994782
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|213587981|gb|DB971456.1|DB971456
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGGT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|213617616|gb|DB969328.1|DB969328
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAA-GGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|209728695|gb|BW655402.1|BW655402
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|151407227|gb|EV277042.1|EV277042
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|10236160|gb|BE805048.1|BE805048
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTAGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|151394787|gb|EV264658.1|EV264658
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|13251953|gb|BG362856.1|BG362856
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|58021619|gb|CX708360.1|CX708360
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|298183643|gb|HO028856.1|HO028856
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|151401464|gb|EV271278.1|EV271278
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|298184687|gb|HO029900.1|HO029900
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|193418380|gb|FK385180.1|FK385180
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTAGGACGAGGTTAGGGCTTTTGG
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCT-GG-CGAGGTTAGGGCTTTTGG
EST: gi|298174935|gb|HO014852.1|HO014852
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|151403993|gb|EV273803.1|EV273803
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|298189804|gb|HO038207.1|HO038207
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|13788917|gb|BG651508.1|BG651508
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|37995436|gb|CF807025.1|CF807025
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|18690778|gb|BM519626.1|BM519626
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|298186113|gb|HO036746.1|HO036746
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|151399348|gb|EV269219.1|EV269219
EST:     ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
EST: gi|298178943|gb|HO024678.1|HO024678
EST:     ATTTCTGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAG                         GGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT
genomic: ATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgttt ... ttgcttccagGGACGTTTCAAGTACCAACCTGGCGAGGTTAGGGCTTTTGGGATGCTTGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTACCCACAAGGAAGGATGTCACACCATTTCCGTGAGATGCGTGTTGGTGACTACCTTTCCGTGAAAGGACCTAAGgtaaatgtttcttctacacatttgtacacaaaactttcaaggtttcccattttcttaatatttcgttgtaaagttgatgatttattcttgtacacataca

- - - - - - - - - - - - - - - - - - GAGATG