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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCGTGGGGAATGTTAGCATGGAGGAAAAGCAAATCTTCCAAAATGTACAACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtccactcttaaaattgaataaaattgttgcatctaagcctattttactgtatttttgtttttgaagttatgatttcaaattttttgctctat...

Basic information

species Glycine max
transcript GLYMA12G31040.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G31040.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G22440.1 (Arabidopsis thaliana), 5'ss of exon 5
AGCCGTGGGGAATGTTAGCATGGAGGAAAAGCAAATCTTCCAAAATGTACAACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc-cactcttaaaattgaataaaattgttgcatctaagcctattttactgtatttttgtttttgaagttatgatttcaaattttttgctctat
 || || || ||| ||  ||||||||| ||||| ||||| |||||||| ||  |||||||||||||||| || ||| | ||||| || || ||||| || || ||||    ||| ||     |||||     | | |   |||      ||||  | |||| |      |   |||| |   ||  | |            
TGCTGTCGGTAATCTTTCCATGGAGGAGAAGCAGATCTTTCAAAATGTTCAGATGAGTGTTAACTTCCTCGTTTCTCTCTTGAAGAAAAACTGGCAAAATgttagtaacaacaccctc----ttgaacttc-tcgatctttctccatacatttatcagtatctaaaacct--gagttgttcctttgactgcag--------

upper sequence: GLYMA12G31040.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G27530.1 (Arabidopsis thaliana), 5'ss of exon 5
AGCCGTGGGGAATGTTAGCATGGAGGAAAAGCAAATCTTCCAAAATGTACAACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtccactcttaaaattgaataaaattgttgcatctaagcctattttac-tgtatttttgtttttgaagttatgatttcaaattttttgctctat
 || || || ||  ||  |||||| || |||||  ||||||| ||||| ||  |||||||||||||||| |||||  | ||||| ||||||||||| |||||   |  | |  | ||     |       ||  |||  |||||     || ||  | | | | |  | |   | || ||||||  |  ||  |||     
TGCTGTTGGTAACCTTTCCATGGAAGAGAAGCAGCTCTTCCAGAATGTGCAGATGAGTGTTAACTTCCTCGTCTCGCTCTTGAAGAAGAATTGGCAAAACgta--tgattctgttttgttcct-------atgattgtgtctaatttctttctaaatctctctctagtgtactaattttgatttggatcttgatgcag---

upper sequence: GLYMA12G31040.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv06s0080g00400.t01 (Vitis vinifera), 5'ss of exon 8
AGCCGTGGGGAATGTTAGCATGGAGGAAAAGCAAATCTTCCAAAATGTACAACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtccactcttaaaattgaataaaattgttgcatctaagcctatt--ttactgtatttttgtttttgaagttatgatttcaaattttttgctctat----
 || ||||| ||    || |||||||| ||||| ||||| |||||||| |||||||| ||||| ||||||||||| |||||||| ||||| ||||| || |||||| |    | ||||    ||     | ||  || | |||| || ||   |||   ||   ||  | || | | | | | |   | | ||| | |   |    
TGCTGTGGGTAACTGCAGTATGGAGGAGAAGCAGATCTTTCAAAATGTGCAACTGAGCGTTAATTTCCTTGTCTCCTTGTTGAAGAAGAACTGGCAAAATgtgagttgatt-cacttagctctgt---tagtttatggaactaaaccaataggttatgataaagtttatattaaggctctcaatc--agtctttaggtacctcact

upper sequence: GLYMA12G31040.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S40_297V6.1 (Physcomitrella patens), 5'ss of exon 3
AGCCGTGGGGAATGTTAGCATGGAGGAAAAGCAAATCTTCCAAAATGTACAACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagta-gtccactc--ttaaaattgaataaa--attgttgcatctaagcctattttact-gtatttttgtttttgaagttatgatttcaaatttttt--gctctat-------------------------------
 ||| | || ||   |   ||||||||||||||||||||||| ||   |||| || ||||||||||||| || ||  ||||||| ||||| |||||||| || ||||  |    ||  ||  | ||||||  |  ||   || |  |   | | |  | || |||||||  || || |||| ||| |   | | | | |  | ||  |                               
CGCCATCGGTAACTGTGATATGGAGGAAAAGCAAATCTTCCAGAACACACAAATGGGTGTTAACTTCCTCGTGTCCCTGTTGAAGAAGAACTGGCAGAATgtaagtacatttgttcctttctatttgaatgcagtatatctgaaggtgttcttgtgatgcttgtattttcattatt-aagtgatggtcatacaatgtctaagttcagtattttatctaacgtttgaatttttgtaacag

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|193651905|gb|FK597680.1|FK597680
EST:     GAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: GAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|31309902|gb|CD395105.1|CD395105
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|193426837|gb|FK392580.1|FK392580
EST:     AATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|193534919|gb|FK489083.1|FK489083
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCAT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCAT
EST: gi|207748325|gb|GD718510.1|GD718510
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|208133167|gb|GD932108.1|GD932108
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|208309504|gb|GE103366.1|GE103366
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|207829138|gb|GD800102.1|GD800102
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|254329948|gb|GR839501.1|GR839501
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|6952084|gb|AW424152.1|AW424152
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|193513031|gb|FK470901.1|FK470901
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAATACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|26059923|gb|CA802837.1|CA802837
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|151413165|gb|EV282973.1|EV282973
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|209707025|gb|BW683262.1|BW683262
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|18716199|gb|BM522876.1|BM522876
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|24205182|gb|BU964435.1|BU964435
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|193441316|gb|FK410025.1|FK410025
EST:     GAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: GAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|193427346|gb|FK396172.1|FK396172
EST:     GTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: GTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|192315373|gb|FK009637.1|FK009637
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|12496286|gb|BG046997.1|BG046997
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGGGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|14010951|gb|BG725881.1|BG725881
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|209724743|gb|BW677785.1|BW677785
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|208272803|gb|GE066267.1|GE066267
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|31310979|gb|CD396182.1|CD396182
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCCCTGGGGAAATCGTACCGTGTCTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCA-TGGGGAAATCGTACCGTGTCTT
EST: gi|193561529|gb|FK518578.1|FK518578
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|207689269|gb|GD670822.1|GD670822
EST:     GAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: GAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|207760119|gb|GD730866.1|GD730866
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
EST: gi|120495150|gb|EH223317.1|EH223317
EST:     AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAAC                         GTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT
genomic: AACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtc ... ttaatttcagGTTCGCTGCCTGTATCTGAAGAGTACCATGGGGAAATCGTACCGTGTCTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCCGTGGGGAATGTTAGCATGGAGGAAAAGCAAATCTTCCAAAATGTACAACTGAGTGTTAACTTCCTTGTCTCTTTGTTGAAAAAGAATTGGCAGAACgtgagtagtccactcttaaaattgaataaaattgttgcatctaagcctattttactgtatttttgtttttgaagttatgatttcaaattttttgctctat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaataaaa