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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccttcttaacatttcccttccccaacacacccctccctcttctctagctagggtttcattttcaccatgttttcctttctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCACGAGAGCGGCGACCACAGCCCTCGCTCTAACGTGCGCGAGCAGGACAGG

Basic information

species Glycine max
transcript GLYMA03G33490.1
intron # 1
splice site 3'
intron type U12 (go to U12 genes for details)

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|21677121|gb|BQ629472.1|BQ629472
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|6133966|gb|AW132359.1|AW132359
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|5605926|gb|AI900024.1|AI900024
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|298195680|gb|HO044071.1|HO044071
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|298176576|gb|HO023163.1|HO023163
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|298176152|gb|HO015557.1|HO015557
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCATGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|16346723|gb|BI972318.1|BI972318
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|7285143|gb|AW597630.1|AW597630
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|298168250|gb|HO013513.1|HO013513
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|18730588|gb|BM525962.1|BM525962
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|8284382|gb|BE021941.1|BE021941
EST:     CCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: CCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|14991093|gb|BI316766.1|BI316766
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
EST: gi|298179158|gb|HO027629.1|HO027629
EST:     TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAG                         GGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA
genomic: TTCTCTCACCGATCTCGCGCCAAATACAAATTCGTGTCAACCCAACCCAGgtatccttct ... ctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccctcttctctagctagggtttcattttcaccatgttttcctttctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCACGAGAGCGGCGACCACAGCCCTCGCTCTAACGTGCGCGAGCAGGACAGG
 ttcctttct  putative branch site 
                    tttcattttcaccatg  putative PPT
                    tttcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatccttcttaacatttcccttccccaacacacccctccctcttctctagctagggtttcattttcaccatgttttcctttctcaaattagGGTTCCGGCGAGCATGGCCGACGGTCCGGCTAGCCCAGGCGGCGGCAGCCACGAGAGCGGCGACCACAGCCCTCGCTCTAACGTGCGCGAGCAGGACAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG