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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttacacaattgctagttttatgatagggttccatactttcatatatattgttttccttcagtattgacgttctaatgaaataaatttccccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGAGCTTGCAAAGGCATAG

Basic information

species Glycine max
transcript GLYMA16G05450.1
intron # 6
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|151407494|gb|EV277309.1|EV277309
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATT                         GCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCT
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCT
EST: gi|9439983|gb|BE440494.1|BE440494
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCNGATT                         GCCAACCACTGGTGGTCCTGCTGCTGCAGCTGCTCTAGCTTCTGATGCTGA
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
EST: gi|192324693|gb|FK018759.1|FK018759
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATT                         GCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
EST: gi|19938613|gb|BQ081803.1|BQ081803
EST:     ACTGGAGCCCAATGCGGAATATATGATGCATTCAAAGTGTCTGTCCGATT                         GCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
EST: gi|14991171|gb|BI316844.1|BI316844
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATT                         GCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
EST: gi|10237660|gb|BE806548.1|BE806548
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATT                         GCCAACCCACTG-TGGTCCTGCTCCTGCAGCTGCTCTAACTTCTGATGCTG
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACC-ACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTG
EST: gi|21888708|gb|BQ741921.1|BQ741921
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATT                         GCCAACCACTGGTGGTCCTGCTCCTGCAG
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAG
EST: gi|13481245|gb|BG510588.1|BG510588
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATT                         GCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
EST: gi|22526003|gb|BU084814.1|BU084814
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATT                         GCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
EST: gi|23728600|gb|BU762362.1|BU762362
EST:     ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATT                         GCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA
genomic: ACTGGAGCCCAATGGGGAATATATGATGCATTCAAAGTGTCTGTCGGATTgtaagtttac ... cccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatattgttttccttcagtattgacgttctaatgaaataaatttccccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGAGCTTGCAAAGGCATAG
                          ttctaat  putative branch site (score: 2)
                                         tttccccttccc  putative PPT
                          ttctaatgaaataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttacacaattgctagttttatgatagggttccatactttcatatatattgttttccttcagtattgacgttctaatgaaataaatttccccttcccagGCCAACCACTGGTGGTCCTGCTCCTGCAGCTGCTCTAGCTTCTGATGCTGAGCTTGCAAAGGCATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG