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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctttctctcactaaattcttttcgagctagtactttaatagcaggatattttcttttaagacaagatatttttttcatatgatcctataatcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG

Basic information

species Glycine max
transcript GLYMA13G20780.1
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|209708530|gb|BW668141.1|BW668141
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|209710379|gb|BW681278.1|BW681278
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|13311384|gb|BG405035.1|BG405035
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|192324906|gb|FK016092.1|FK016092
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|208250133|gb|GE044958.1|GE044958
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAAT
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAAT
EST: gi|12773339|gb|BG238266.1|BG238266
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|213598835|gb|DB968306.1|DB968306
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|209711575|gb|BW676820.1|BW676820
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGGGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|13477616|gb|BG507425.1|BG507425
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACCTTGCTGGGG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|4437142|gb|AI523007.1|AI523007
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|209711086|gb|BW681150.1|BW681150
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|151405346|gb|EV275160.1|EV275160
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|192327273|gb|FK019550.1|FK019550
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|151404672|gb|EV274486.1|EV274486
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|11687342|gb|BF594982.1|BF594982
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|208207845|gb|GE008088.1|GE008088
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|213611486|gb|DB959196.1|DB959196
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|9987590|gb|BE661698.1|BE661698
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|213597865|gb|DB958246.1|DB958246
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|19937792|gb|BQ081423.1|BQ081423
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|298174188|gb|HO017524.1|HO017524
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|12773014|gb|BG237941.1|BG237941
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|14126129|gb|BG790567.1|BG790567
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|213591667|gb|DB969767.1|DB969767
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|213587888|gb|DB959712.1|DB959712
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|213605470|gb|DB964609.1|DB964609
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|208273170|gb|GE070092.1|GE070092
EST:     CACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: CACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
EST: gi|4395913|gb|AI494910.1|AI494910
EST:     GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTAT                         GTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
genomic: GGTATCAAGTTGAACGATGCGATTCTCGCTGAGGATAAGCACAAACCTATgtaagatttt ... atcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatattttcttttaagacaagatatttttttcatatgatcctataatcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG
                                              tcatttc  CT-rich tract
         ttttaagacaagatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gctttctctcactaaattcttttcgagctagtactttaatagcaggatattttcttttaagacaagatatttttttcatatgatcctataatcatttcagGTATGAAGAATTGGCTAACAATCCTAATGTGGAGTACATTGCTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - -ctctcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagacaag