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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGCTTAAGGAATTTAGTACCAAAAATGGATATGATCTCAACAGAAACAGAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaattagttgctttcatgatattgttttttcatctgttctgtgctttcattctctgccgatctttttagataatgatttttgtactaaagtgtg...

Basic information

species Glycine max
transcript GLYMA10G44070.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G44070.2 (Glycine max), 5'ss of exon 4
lower sequence: AT3G55005.1 (Arabidopsis thaliana), 5'ss of exon 4
AGAGCTTAAGGAATTTAGTACCAAAAATGGATATGATCTCAACAGAAACAGAGATAGT---CCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaattagttgctttcatgatattgttttttcatctgttctgtgctttcattctctgccgatcttt---ttagataatgatttttgtactaaagtgtg
   | |    || ||||||| ||| ||||| ||||| |||||||||||   |||||||   || || ||  ||||||| |||||||||||||||||| ||||||| ||||   |  || || || |||   |||||   |||    | |    |||  || | |  |  | |      |  | ||  || |||||   | | |   
---GATACGTGACTTTAGTATCAACAATGGTTATGAGCTCAACAGAAATGAAGATAGTAGACCGCTTCTTCTGGATGTTCTTGAAGGATTCTTGAAGTTCGAGgtatttcttctgctttctctc-tgaagatgtttacacatacagtatagcttttttttttttctctgtttacaagctttacaaccatatttgttacacatta--

upper sequence: GLYMA10G44070.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g03320.t01 (Vitis vinifera), 5'ss of exon 4
AGAGCTTAAGGAATTTAGTACCAAAAATGGATATGATCTCAACAGAAACAGAGATAGT---CCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaattagttgctttcatgatattgttttttcatctgttctgtgctttcattctctgccgatctttttagata-atgatttttgtactaa-agtgtg-
     | ||||||||||||| ||| |||||||||||||| ||| | ||  |||| |||   ||| | || |||||||| |||||||||||||| ||| |||||||||     |||| |   ||  |  ||||   || |    |||    | ||   ||    ||   ||||||  | ||  |||| || | |   || ||| |  
---ATTGAAGGAATTTAGTAGCAAGAATGGATATGATCTTAACCGGAATGGAGAAAGTTGTCCTTTACTTTTGGATGTCCTTGAAGGATTCTTAAAGTTCGAGgtttgatg-ttagatctatttctattattaaattgtggattgtctcattctag-atgagatgat-atctttggaaatccatgacttgtatgaaaacagtatca
















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|298172736|gb|HO019776.1|HO019776
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTA
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTA
EST: gi|193530561|gb|FK484898.1|FK484898
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|17020875|gb|BM091909.1|BM091909
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|193712621|gb|FK649728.1|FK649728
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|193556985|gb|FK516142.1|FK516142
EST:     GAGATAGTCCTCTGCTTTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|151396981|gb|EV266854.1|EV266854
EST:     GAGATAGTCCTCTGTTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|151401442|gb|EV271256.1|EV271256
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|15663781|gb|BI701152.1|BI701152
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|192305408|gb|FG998276.1|FG998276
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTACCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|193343740|gb|FK311500.1|FK311500
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|7691278|gb|AW759472.1|AW759472
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|193513369|gb|FK471477.1|FK471477
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
EST: gi|193343638|gb|FK310250.1|FK310250
EST:     GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAG                         AATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT
genomic: GAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaat ... tcttctgtagAATTTATCCCAAGCAAGAGCTAGTGGTAGGAGATTTGCCACCTCAGAAACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGCTTAAGGAATTTAGTACCAAAAATGGATATGATCTCAACAGAAACAGAGATAGTCCTCTGCTCTTGGATGTGCTTGAAGGATTCTTGAAGCTCGAGgtttttcaattagttgctttcatgatattgttttttcatctgttctgtgctttcattctctgccgatctttttagataatgatttttgtactaaagtgtg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC