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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agctttctctcctcactaaattcttttcgagctactattttaatagcaggatattttcttttatgatatttttgttcatattatcctataatcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG

Basic information

species Glycine max
transcript GLYMA10G06580.1
intron # 2
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|8284137|gb|BE021696.1|BE021696
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|6454402|gb|AW185085.1|AW185085
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|213618065|gb|DB963698.1|DB963698
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|17022031|gb|BM093065.1|BM093065
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|209709321|gb|BW680986.1|BW680986
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|12690012|gb|BG156348.1|BG156348
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|151394548|gb|EV264419.1|EV264419
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|5606299|gb|AI900405.1|AI900405
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|120531830|gb|EH259963.1|EH259963
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|19936079|gb|BQ080713.1|BQ080713
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|13125032|gb|BG315575.1|BG315575
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAA
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|208328745|gb|GE130869.1|GE130869
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAAT
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAAT
EST: gi|16105072|gb|BI892812.1|BI892812
EST:     CGATTCTCGCCGAGGATAAACACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: CGATTCTCGCCGAGGATAAACACAAACCTATgtaagatttt ... atcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaggatattttcttttatgatatttttgttcatattatcctataatcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
                                              tcatctc  CT-rich tract
     atattttcttttatga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agctttctctcctcactaaattcttttcgagctactattttaatagcaggatattttcttttatgatatttttgttcatattatcctataatcatctcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - ctctcct
- - - - - - - - - - - - - - - gctacta