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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgttacttgacaatcacaagtggtatttatgcaatatgccttttcctggtaatcattgaaataatcagtgtttaataaataataattcatattttagGTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGTGGTTTATCTATACAGAGTAATAAATTAACTCTTGGCAAGGACGTCAATG

Basic information

species Glycine max
transcript GLYMA15G17070.1
intron # 1
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|15814663|gb|BI786938.1|BI786938
EST:     CTCAGATTCTTTGTTTTGAG                         GTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGT
genomic: CTCAGATTCTTTGTTTTGAGgtatgtgggt ... catattttagGTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGT
EST: gi|192301112|gb|FG988007.1|FG988007
EST:     ACTTCCTTCATACTCTCTCTCAGATTCTTTGTTTTGAG                         GTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGT
genomic: ACTTCCTTCATACTCTCTCTCAGATTCTTTGTTTTGAGgtatgtgggt ... catattttagGTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGT
EST: gi|120496671|gb|EH224838.1|EH224838
EST:     ATTCTTTGTTTTGAG                         GTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGT
genomic: ATTCTTTGTTTTGAGgtatgtgggt ... catattttagGTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctggtaatcattgaaataatcagtgtttaataaataataattcatattttagGTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGTGGTTTATCTATACAGAGTAATAAATTAACTCTTGGCAAGGACGTCAATG
                           gtttaat  putative branch site (score: 4)
 aaataatcagtgttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acttgttacttgacaatcacaagtggtatttatgcaatatgccttttcctggtaatcattgaaataatcagtgtttaataaataataattcatattttagGTTCTCTTCTTTATACGGATGGCAGCACCATTGGCATGTCTTGTTGGGAGTGGTTTATCTATACAGAGTAATAAATTAACTCTTGGCAAGGACGTCAATG

- - - - - - -caatcac
- - - - - - - - - - - - - - - tatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaataa