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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctatggttagtgtcataaaatatttgtctttgacatgtagtctactttttagagattgtgtttggattaacctgatgataatgtttatttgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT

Basic information

species Glycine max
transcript GLYMA18G48610.1
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|192309087|gb|FG999384.1|FG999384
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATT
EST: gi|21993817|gb|BQ785345.1|BQ785345
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|213615420|gb|DB965506.1|DB965506
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|298174542|gb|HO017765.1|HO017765
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|8403151|gb|BE058785.1|BE058785
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|213619737|gb|DB967359.1|DB967359
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|13181256|gb|BG352596.1|BG352596
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|213590611|gb|DB973342.1|DB973342
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|192299109|gb|FG992870.1|FG992870
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAACACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|209726159|gb|BW677900.1|BW677900
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|213617461|gb|DB965248.1|DB965248
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|254317319|gb|GR826264.1|GR826264
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|298182292|gb|HO026467.1|HO026467
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|21600841|gb|BQ611172.1|BQ611172
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TTANGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|151407899|gb|EV277714.1|EV277714
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|192322414|gb|FK014895.1|FK014895
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|8826765|gb|BE210495.1|BE210495
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|14259352|gb|BG882260.1|BG882260
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|209719631|gb|BW672086.1|BW672086
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|298184517|gb|HO029730.1|HO029730
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
EST: gi|213602253|gb|DB958513.1|DB958513
EST:     CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGC                         TGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
genomic: CTTATTGGAGACTCTGGTGTTGGTAAATCATGCCTTCTTCTGAGATTTGCtgtaagcttt ... tgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttttagagattgtgtttggattaacctgatgataatgtttatttgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT
                                       tttattt  CT-rich tract
                              atgataatgtttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctatggttagtgtcataaaatatttgtctttgacatgtagtctactttttagagattgtgtttggattaacctgatgataatgtttatttgatgctacaGGATGATTCGTACATCGAGAGCTACATAAGCACCATTGGAGTTGATTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - gttagtg
- - - - - - - -ataaaata
- - - - - - - - - - - - - gtctttg
- - - - - - - - - - - - - - - - -acatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - gattgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgatg