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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatcatgccttcaattatatatccagttttttgcttcctgtttgctttttatttctccttcctgctaacatatccattactgaaaactttggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC

Basic information

species Glycine max
transcript GLYMA20G36590.2
intron # 3
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|305377783|gb|HO652014.1|HO652014
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAACGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAATGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|193638359|gb|FK586727.1|FK586727
EST:     ATTTTTAATGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCCTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATTTTTAATGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|298168281|gb|HO014456.1|HO014456
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAATGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGGTTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAATGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|51335732|gb|CO979598.1|CO979598
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAATGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAATGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
EST: gi|15812814|gb|BI785089.1|BI785089
EST:     ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAATGCATCAGTT                         GCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
genomic: ATGGACTGAAGCTTCACATTGATGGGGCCCGTATTTTTAATGCATCAGTTgtaagaaatt ... ggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttatttctccttcctgctaacatatccattactgaaaactttggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC
                 tgctaac  putative branch site (score: 1)
                                               tttttt  putative PPT
                                               tttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatcatgccttcaattatatatccagttttttgcttcctgtttgctttttatttctccttcctgctaacatatccattactgaaaactttggttttttagGCACTTGGTGTTCCAGTGGATAGGCTTGTCCAGGCGGCTGATTCAGTTTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- -catgcct
- - - - - - - - - - - - - - - -tgcttcc