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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatcctttggctttttattttttcaaaatgatttcttatcttcatcttctcttgtcattatgcatacctacctttgaaaataaataaagggtgaccaagtattatgtgtttcatgattctgtattccagtctaagatatgggactctgttttactaatgttctttttcaaacttttattatctctagGTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTTTATTTCTTCTGGATAAACCTGCTGCAGCAATTTCTGTTGCTGTTATTGG

Basic information

species Glycine max
transcript GLYMA13G34570.1
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|15286732|gb|BI470623.1|BI470623
EST:     TGCCCTTGCTATGCTGTGCTTAACCAGTGGCTGTTTCTTTGCTAGCACTA                         GTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTT
genomic: TGCCCTTGCTATGCTGTGCTTAACCAGTGGCTGTTTCTTTGCTAGCACTAgtaagtgatc ... ttatctctagGTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTT
EST: gi|193614860|gb|FK561078.1|FK561078
EST:     TGCCCTTGCTATGCTGTGCTTAACCAGTGGCTGTTTCTTTGCTAGCACTA                         GTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCT
genomic: TGCCCTTGCTATGCTGTGCTTAACCAGTGGCTGTTTCTTTGCTAGCACTAgtaagtgatc ... ttatctctagGTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCT
EST: gi|298178623|gb|HO024358.1|HO024358
EST:     GCCCTTGCTATGCTGTGCTTAACCAGTGGCTGGTTTCTTTGCTAGCACTA                         GTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTT
genomic: GCCCTTGCTATGCTGTGCTTAACCAGTGGCT-GTTTCTTTGCTAGCACTAgtaagtgatc ... ttatctctagGTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTT
EST: gi|208083593|gb|GD880995.1|GD880995
EST:     TGGCTGTTTCTTTGCTAGCACTA                         GTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTT
genomic: TGGCTGTTTCTTTGCTAGCACTAgtaagtgatc ... ttatctctagGTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTT
EST: gi|193313985|gb|FK282460.1|FK282460
EST:     TGCCCTTGCTATGCTGTGCTTAACCAGTGGCTGTTTCTTTGCTAGCACTA                         GTTTCTTGCCG
genomic: TGCCCTTGCTATGCTGTGCTTAACCAGTGGCTGTTTCTTTGCTAGCACTAgtaagtgatc ... ttatctctagGTTTCTTGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagatatgggactctgttttactaatgttctttttcaaacttttattatctctagGTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTTTATTTCTTCTGGATAAACCTGCTGCAGCAATTTCTGTTGCTGTTATTGG
                   tactaat  putative branch site (score: 1)
 cttttattatctct  putative PPT
 taatgttctttttcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgatcctttggctttttattttttcaaaatgatttcttatcttcatcttctcttgtcattatgcatacctacctttgaaaataaataaagggtgaccaagtattatgtgtttcatgattctgtattccagtctaagatatgggactctgttttactaatgttctttttcaaacttttattatctctagGTTTCTTGCCGAGTTCGTTTTCTATGTATGCAATATCTCTTGCATCAGGTTTATTTCTTCTGGATAAACCTGCTGCAGCAATTTCTGTTGCTGTTATTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT