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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcaaacaacatatgtttatagaaaccataattatatacttcatatctgaatggttgaattattcttgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCTGACAGTAATGAGAAGAAGGCAGTATATTCCCGGCTTGAGGAGGAAGTTA

Basic information

species Glycine max
transcript GLYMA03G39130.1
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|6845919|gb|AW348209.1|AW348209
EST:     ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAG                         GCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
genomic: ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAGgttagtcaaa ... tgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
EST: gi|192297310|gb|FG992404.1|FG992404
EST:     ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAG                         GCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
genomic: ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAGgttagtcaaa ... tgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
EST: gi|308098193|gb|HO761364.1|HO761364
EST:     ATGAGAAATGTGGTACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAG                         GCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
genomic: ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAGgttagtcaaa ... tgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
EST: gi|17020695|gb|BM091729.1|BM091729
EST:     ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAG                         GCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
genomic: ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAGgttagtcaaa ... tgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
EST: gi|17021210|gb|BM092244.1|BM092244
EST:     ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAG                         GCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
genomic: ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAGgttagtcaaa ... tgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
EST: gi|58023280|gb|CX710021.1|CX710021
EST:     ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAG                         GCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT
genomic: ATGAGAAATGTGGCACCTACCGTGATGGGAAGGGACAGCTTACTTCTAAGgttagtcaaa ... tgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaccataattatatacttcatatctgaatggttgaattattcttgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCTGACAGTAATGAGAAGAAGGCAGTATATTCCCGGCTTGAGGAGGAAGTTA
                                      ttattctt  CT-rich tract
      ataattatatacttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtcaaacaacatatgtttatagaaaccataattatatacttcatatctgaatggttgaattattcttgctgtgtagGCTGGTATAATAGCATCTCTGGATGACTTGGTGAAGGAGTTTGTGAGTGCTGACAGTAATGAGAAGAAGGCAGTATATTCCCGGCTTGAGGAGGAAGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA