Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctacagcagtgttcttattctttagtcaatgatttctaactcctttttgaccaaaaactcgaagccagttttgttgcatccttaactgttattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGGGCCGGCTGCTAATAACCCTCAGCAAGAGAGGGGTTCGGGAGTTGCTTTC

Basic information

species Glycine max
transcript GLYMA08G03630.1
intron # 6
splice site 3'
intron type U12 (go to U12 genes for details)

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|151406483|gb|EV276298.1|EV276298
EST:     TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGGAGAATTGGAGTGCGACCAATTAGCCGTGG
genomic: TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
EST: gi|192332520|gb|FK025625.1|FK025625
EST:     TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
genomic: TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
EST: gi|193631653|gb|FK582336.1|FK582336
EST:     TCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
genomic: TCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
EST: gi|42723245|gb|CK769144.1|CK769144
EST:     TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGG
genomic: TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGG
EST: gi|192308726|gb|FG999765.1|FG999765
EST:     CAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
genomic: CAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
EST: gi|14011622|gb|BG726544.1|BG726544
EST:     GAAAGAACATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
genomic: GAAAGAACATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
EST: gi|192308389|gb|FK001347.1|FK001347
EST:     TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
genomic: TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
EST: gi|208084549|gb|GD879739.1|GD879739
EST:     ATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
genomic: ATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
EST: gi|213596841|gb|DB978045.1|DB978045
EST:     TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGT                         ACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG
genomic: TTGCATCCACTAGCAGGTGGAAAGAACATTTTGAAGACTCCAATGTGGGTgtatccttct ... tattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgaccaaaaactcgaagccagttttgttgcatccttaactgttattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGGGCCGGCTGCTAATAACCCTCAGCAAGAGAGGGGTTCGGGAGTTGCTTTC
                                 atccttaac  putative branch site 
                                            ttattttcc  putative PPT
                                     ttaactgttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctacagcagtgttcttattctttagtcaatgatttctaactcctttttgaccaaaaactcgaagccagttttgttgcatccttaactgttattttccagACATAAATTAATTGCAAGATGGAGAATTGGAGTGCAACCAATTAGCCGTGGGCCGGCTGCTAATAACCCTCAGCAAGAGAGGGGTTCGGGAGTTGCTTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - agtgttc
- - - - - - - - - - - - - - - - - - - - - - - - - accaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatcc