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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatctggctcatattatgcatggtgtcaatgtgtcatcatattgtggttcttttttactcagctagtatgctttctcatcttaattgttgtcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAAGAAGAGGATGAAGAACTGGACGATCAAGATGACGATGAACATGGAGAGA

Basic information

species Glycine max
transcript GLYMA07G04040.1
intron # 4
splice site 3'
intron type U2

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|15000993|gb|BI321807.1|BI321807
EST:     CTTCGGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAA-G--                         CAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
EST: gi|21994611|gb|BQ786139.1|BQ786139
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCA                         C-G--AGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
EST: gi|192326234|gb|FK015826.1|FK015826
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAG-CA                         --GCGAGCTTCGGAAT
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttgtgcagCAGCGAGCTTCGGAAT
EST: gi|192297449|gb|FG989513.1|FG989513
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAG-CA                         --GCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
EST: gi|192333136|gb|FK026465.1|FK026465
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTA-GGCA                         CAGCGAGCTTCGGAATCTC-GGCTAGACAGCCAAAGCCATTGCAATCAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAA
EST: gi|151405473|gb|EV275287.1|EV275287
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAG-CA                         --GCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
EST: gi|58014682|gb|CX701424.1|CX701424
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAA-G--                         CAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
EST: gi|120532679|gb|EH260812.1|EH260812
EST:     CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAG-CA                         --GCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA
genomic: CTTCAGTTTCAAACCACAGTGGCAGCAAGTCTAAGTCCAGCTCTAAGGCAgtaataatat ... tcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttcttttttactcagctagtatgctttctcatcttaattgttgtcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAAGAAGAGGATGAAGAACTGGACGATCAAGATGACGATGAACATGGAGAGA
                                 tcttaat  putative branch site (score: 3)
                                          ttgtctt  putative PPT
     ttttttact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatctggctcatattatgcatggtgtcaatgtgtcatcatattgtggttcttttttactcagctagtatgctttctcatcttaattgttgtcttgtgcagCAGCGAGCTTCGGAATCTCAGGCTAGACAGCCAAAGCCATTGCAATCAAAAGAAGAGGATGAAGAACTGGACGATCAAGATGACGATGAACATGGAGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - -gcatggt
- - - - - - - - - - - - - caatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgct