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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctattctgaagccttttgtattttgctgattataaatacatcctaattattagtttgaagcattcattcaactcacgtgttctatatttgaatt...

Basic information

species Glycine max
transcript GLYMA13G31130.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G054136_T06 (Zea mays), 5'ss of exon 3
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtcta-ttctgaagccttttgtattttgctgattataaatacatcctaattattagtttgaagcattcattcaactcacgtgttctatatttgaatt-
|||||||||||||| || |  || || || ||||||||||| || ||||||||||||||||| |||||  ||||||||||||| ||  |||| ||||| |||||    | |||  |       |||| | |    |  ||   |  |  || ||| ||| | ||||   |  ||   | |   ||      |   ||  |  
GGTTATGTCTTCAAGATCATGGGTGGATGTGACAAGCAAGGCTTCCCAATGAAGCAAGGAGTTTTGACTTCTGGTCGTGTTCGTCTTCTGCTCCATAGGGgtatagagacttcctatttacagtgtactctcagcaccatcttt-tactctgattctta-tctgaacattcgatatcaattctgtagggactccctgcttcc

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G054136_T02 (Zea mays), 5'ss of exon 3
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtcta-ttctgaagccttttgtattttgctgattataaatacatcctaattattagtttgaagcattcattcaactcacgtgttctatatttgaatt
|||||||||||||| || |  || || || ||||||||||| || ||||||||||||||||| |||||  ||||||||||||| ||  |||| ||||| |||||    | |||  |       |||| | |    |  ||   |  |  || ||| ||| | ||||     ||||| |   |    |||| ||        
GGTTATGTCTTCAAGATCATGGGTGGATGTGACAAGCAAGGCTTCCCAATGAAGCAAGGAGTTTTGACTTCTGGTCGTGTTCGTCTTCTGCTCCATAGGGgtatagagacttcctatttacagtgtactctcagcaccatcttt-tactctgattctta-tctgaa-----cattcgat--atcaattctgtag-------

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G054136_T01 (Zea mays), 5'ss of exon 4
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtcta-ttctgaagccttttgtattttgctgattataaatacatcctaattattagtttgaagcattcattcaactcacgtgttctatatttgaatt
|||||||||||||| || |  || || || ||||||||||| || ||||||||||||||||| |||||  ||||||||||||| ||  |||| ||||| |||||    | |||  | | |   |||| | |    |  ||   |  |  || ||| ||| | ||||     ||||| |   |    |||| ||        
GGTTATGTCTTCAAGATCATGGGTGGATGTGACAAGCAAGGCTTCCCAATGAAGCAAGGAGTTTTGACTTCTGGTCGTGTTCGTCTTCTGCTCCATAGGGgtatagagacttcctatgtccagtgtactctcaacaccatcttt-tactctgattctta-tctgaa-----cattcgat--atcaattctgtag-------

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G851698_T01 (Zea mays), 5'ss of exon 4
---------GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctattctgaagccttttgtattttgctgattataaatacatcctaattattagtttgaagcattcattcaactcacgtgttctatatttgaatt
         |||||||||||||| || |  || || || ||||| ||||| || |||||||||||||||||  ||||  |||||||||| |||||  |||| || |||||||| |  | | | |   |  ||||| |                                                                        
GAGTTTAAGGGTTATGTCTTCAAGATCATGGGTGGATgtgacaaacaaggcttcccaatgaagcaaggagttctgacttctggtcgtgtccgccttctgctccacagaggtatatagactgt-atctccattgtactc-----------------------------------------------------------------------

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G851698_T02 (Zea mays), 5'ss of exon 4
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctattctgaagccttttgtattttgctgattataaatacatcctaattattagtttgaagcattcattcaactcacgtgttctatatttgaatt
|||||||||||||| || |  || || || ||||| ||||| || |||||||||||||||||  ||||  |||||||||| |||||  |||| || |||||||| |  | | |    || ||    | |             |  | |     |  |  | ||||   || ||   | |   ||                
GGTTATGTCTTCAAGATCATGGGTGGATGTGACAAACAAGGCTTCCCAATGAAGCAAGGAGTTCTGACTTCTGGTCGTGTCCGCCTTCTGCTCCACAGAGgtatatagactgtatctccattgtactctcaacaccccctcttttacctgtggttcttatctgaacatttgatatgaattgtgtag--------------

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G31700.1 (Arabidopsis thaliana), 5'ss of exon 4
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctattctgaagccttt--tgtattttgctgattataaatacatcctaattattagtttgaagcattcattc--aactcacgt-gttctatatt---tgaatt-
|| || || ||||| || |  || |||||||| |||||||| || ||||||||||| ||||| ||||| || || ||||||||||| ||||| ||  ||||||  |  |      | | |||  |  | |||      |||||     |  || || |  || ||     ||   |    | | || | |||   || |   ||||   
GGATACGTTTTCAAGATCAAGGGTGGTTGCGATAAGCAAGGTTTCCCAATGAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacag

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0017g01350.t01 (Vitis vinifera), 5'ss of exon 4
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctattctgaagccttttgtattttg---ctgattataaa---tacatcctaattatta-----gtttgaagcattc-attcaactcacgtgttctatatttgaatt-
|| ||||| ||||| || |  || ||||| ||||||||||| ||||| |||||||| |||||  |||| ||||| |||||| | || ||||| ||||| |||  ||  | |  ||    | |  |  ||     ||||| | ||    ||  | |  ||| |||     ||| |    ||   ||| |   ||| |  |   |||||||    
GGCTATGTTTTCAAGATCATGGGTGGTTGTGACAAGCAAGGGTTTCCCATGAAGCAGGGAGTACTGACTCCTGGCCGTGTTAGTCTTTTGCTTCATAGGGgtgagtaaactgggactgttctaatccttaaaaactgatcacaacccttaagttcatatttttatgcaagttgggtctatgagatttattacactttatgcttatttgagcag

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv07s0191g00060.t01 (Vitis vinifera), 5'ss of exon 4
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgt---ctattctgaagccttttg--tattttgctg-------attataaatacatcctaattattagtttgaagc--attcattcaact-cacgtgtt----ctatatttgaatt----------------------------------------------------------------
|||||||| |||||||| |  ||||| || ||||||||||| |||||||||||||| |||||  ||||||| || || || |  ||  |||| || ||||||  ||   ||  |||    | || ||  ||||| | ||       |||| |   |  |  ||  ||||  |||| ||   |||    ||  | | | ||||     | |  || | ||                                                                
GGTTATGTATTCAAAATAATGGGAGGCTGTGACAAGCAAGGTTTTCCAATGAAGCAGGGAGTACTGACCCCAGGCCGAGTCCAACTTCTGCTTCACAGAGgttggtagactggtctactactttgtgcatatttagatgtgaaacaattaaatgcagtttttatatattgttttggagtttatttgggcattttctcctgttagcattgtggttaatttgtctcattctgcatttgctcgatgcttgatgaaactaatacgaattggcattttgcttgaacag

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0001g06290.t01 (Vitis vinifera), 5'ss of exon 4
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctattctgaagcctt--ttgtattttgctgattataaatacatcctaatta-------------ttagtttgaagcat---tcattcaactcacgtgttctatatttgaatt---------------------------------------
|| ||||| |||||||| |  ||||| || ||||||||||| || ||||||||||| |||||||| || |||||||||||| | |||||||| |||||||||  || | |  ||     ||  |  |  |   ||||  |  | | | ||    |||               |||| |||||||   |   |     || || || |    |||   |                                       
GGCTATGTATTCAAAATCATGGGAGGCTGTGACAAGCAAGGGTTCCCAATGAAGCAGGGAGTGTTAACTCCTGGTCGTGTTAGTCTCTTGCTCCATAGAGgtgggtttttggtggtatattagtgttggtgcactgaccaccattccttcaagtttaagatggatcacggccagttagaagcatgttttgctaggaccatgttttgttgccttgtcatagatgatggatgaaaactgttctagttttgcttaagcag

upper sequence: GLYMA13G31130.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S253_7V6.1 (Physcomitrella patens), 5'ss of exon 3
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctattctgaagccttttgtattttgct-gattataaatacatcctaattattagtt-tgaagcattcattcaactcacgtgttctatatttgaatt------------------------------------------------------------
|| ||||||||||| ||||  ||||||||||||||||| || || || |||||||| |||||  | || |  || ||||| |  |||||| |||| |||||||||  |||    |   ||  | | | |   | ||| ||  || |     | |   | | | || || |  |  | |  |    ||   ||  |||||                                                               
GGGTATGTCTTCAAGATTATGGGAGGTTGCGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTTCTCACACAAGGCCGTGTGCAGCTCTTGATGCACAGAGgtatggatataaacacagctggtatgtctgagtagatcatttat-cgcgtcactgcctcgctgtgcagaaagcgatgagttgcgttgaagtacctttgatgcactcagtacggccgcgaggttatgattttcatctgtaacgactcttgcctgttgtcgcag

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|298182669|gb|HO031404.1|HO031404
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|151407299|gb|EV277114.1|EV277114
EST:     GAAGCAAGGAGTGTTGACCCGTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|41145367|gb|CK605578.1|CK605578
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|11413313|gb|BF425324.1|BF425324
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|298173823|gb|HO017159.1|HO017159
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|151403312|gb|EV273122.1|EV273122
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GGACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|298175030|gb|HO018025.1|HO018025
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|298181172|gb|HO022611.1|HO022611
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|298190922|gb|HO038401.1|HO038401
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|17519909|gb|BM188951.1|BM188951
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|58017152|gb|CX703894.1|CX703894
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|18040763|gb|BM309057.1|BM309057
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|8283060|gb|BE020621.1|BE020621
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|21594126|gb|BQ610061.1|BQ610061
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|10846367|gb|BF071320.1|BF071320
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|192326806|gb|FK018558.1|FK018558
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
EST: gi|17400921|gb|BM177703.1|BM177703
EST:     GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAG                         GAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA
genomic: GAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctat ... acctgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTATGTCTTCAAAATTACTGGAGGTTGCGACAAGCAAGGATTTCCAATGAAGCAAGGAGTGTTGACCCCTGGTCGTGTTCGCCTCTTGCTGCATAGAGgtatgtctattctgaagccttttgtattttgctgattataaatacatcctaattattagtttgaagcattcattcaactcacgtgttctatatttgaatt

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC