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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaaagaaacatgcaaacttattcatttttccttattgtgaatactgaataattccatgaaacatatttgtagcatgtctgactttatttgcatttttagTTGCTGGCCAAGCTTCAAAAAGTGGCAACGATGTTCTTTTGGATCTTTTGTCTATTGGATCACCTTCTGTCGAAAGCAGCTCATCTACAGTAGACATCTT

Basic information

species Glycine max
transcript GLYMA01G03890.1
intron # 14
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|9440480|gb|BE440984.1|BE440984
EST:     TCTTCAGGACCTTCTTGGTGTTGATCTTTCACCAGCATCACAACAATCTG                         TTGCTGGCCAAGCTTCAAAAAGTGGCAACGATGTTCTTTTGGATCTTTTGT
genomic: TCTTCAGGACCTTCTTGGTGTTGATCTTTCACCAGCATCACAACAATCTGgttagtattt ... gcatttttagTTGCTGGCCAAGCTTCAAAAAGTGGCAACGATGTTCTTTTGGATCTTTTGT
EST: gi|9259539|gb|BE347694.1|BE347694
EST:     TCTTCAGGACCTTCTTGGTGTTGATCTTTCACCAGCATCACAACAATCTG                         TTGCTGGCCAAGCTTCAAAAAGTGGCAACGATGTTCTTTTGGATCTTTTGT
genomic: TCTTCAGGACCTTCTTGGTGTTGATCTTTCACCAGCATCACAACAATCTGgttagtattt ... gcatttttagTTGCTGGCCAAGCTTCAAAAAGTGGCAACGATGTTCTTTTGGATCTTTTGT
EST: gi|17518713|gb|BM187755.1|BM187755
EST:     TCTTCAGGACCTTCTTGGTGTTGATCTTTCACCAGCATCACAACAATCTG                         TTGCTGGCCAAGCTTCAAAAAGTGGC
genomic: TCTTCAGGACCTTCTTGGTGTTGATCTTTCACCAGCATCACAACAATCTGgttagtattt ... gcatttttagTTGCTGGCCAAGCTTCAAAAAGTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaataattccatgaaacatatttgtagcatgtctgactttatttgcatttttagTTGCTGGCCAAGCTTCAAAAAGTGGCAACGATGTTCTTTTGGATCTTTTGTCTATTGGATCACCTTCTGTCGAAAGCAGCTCATCTACAGTAGACATCTT
                               gtctgac  putative branch site (score: 3)
 cattttt  putative PPT
 tttatttgcattttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaaagaaacatgcaaacttattcatttttccttattgtgaatactgaataattccatgaaacatatttgtagcatgtctgactttatttgcatttttagTTGCTGGCCAAGCTTCAAAAAGTGGCAACGATGTTCTTTTGGATCTTTTGTCTATTGGATCACCTTCTGTCGAAAGCAGCTCATCTACAGTAGACATCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgtc