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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatgttatttattcttttgatatattattactgtgctttttttaaaaataaaataaaattggttctccacttttatttgttgaatttttaacctgggaattattttgcagGTCACTGTTCCATCATTGGCCTCTGTTTATAATGAGTATGCTTTGAAGAGCCAATATGATACAAGCATTTATCTGCAG

Basic information

species Glycine max
transcript GLYMA20G39020.3
intron # 8
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|19347272|gb|BM892152.1|BM892152
EST:     CTTTGGGTCTTCCTGTCACAATGGGTGCATATATCTATACATTGATCTTT                         GTCACTGTTCCATCATTGGCCTCTGTTTATAATGAGTATGCTTTGAAGAGC
genomic: CTTTGGGTCTTCCTGTCACAATGGGTGCATATATCTATACATTGATCTTTgtaagtgatg ... tattttgcagGTCACTGTTCCATCATTGGCCTCTGTTTATAATGAGTATGCTTTGAAGAGC
EST: gi|8827776|gb|BE211506.1|BE211506
EST:     CTNTGGGTCTTCCTGTCACAATGGGTGCATATATCTATACATNGATCTTT                         GTCACTGTTCCATCATTGGCCTCTGT
genomic: CTTTGGGTCTTCCTGTCACAATGGGTGCATATATCTATACATTGATCTTTgtaagtgatg ... tattttgcagGTCACTGTTCCATCATTGGCCTCTGT
EST: gi|192326776|gb|FK018903.1|FK018903
EST:     CTTTGGGTCTTCCTGTCACAATGGGTGCATATATCTATACATTGATCTTT                         GTCACTGTTCCA
genomic: CTTTGGGTCTTCCTGTCACAATGGGTGCATATATCTATACATTGATCTTTgtaagtgatg ... tattttgcagGTCACTGTTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattggttctccacttttatttgttgaatttttaacctgggaattattttgcagGTCACTGTTCCATCATTGGCCTCTGTTTATAATGAGTATGCTTTGAAGAGCCAATATGATACAAGCATTTATCTGCAG
                              ttttaac  putative branch site (score: 2)
                                            ttatttt  putative PPT
             acttttatttgttgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgatgttatttattcttttgatatattattactgtgctttttttaaaaataaaataaaattggttctccacttttatttgttgaatttttaacctgggaattattttgcagGTCACTGTTCCATCATTGGCCTCTGTTTATAATGAGTATGCTTTGAAGAGCCAATATGATACAAGCATTTATCTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG