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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATAAATATGCTAATGAAGATGTCTCGCTTGGTGCATGGTTCATTGGTCTTGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacctgaaaatatgtaaccaacaaacactctctactgcaatatgttctgccacttagtactagtatttgtgactttgtcatacactcatactgc...

Basic information

species Glycine max
transcript GLYMA06G11330.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G11330.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G013079_T01 (Zea mays), 5'ss of exon 10
CATAAATATGCTAATGAAGATGTCTCGCTTGGTGCATGGTTCATTGGTCTTGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacctgaaaatatgtaaccaacaaacactctctactgcaatatgttctgccacttagtactagtatttgtgactttgtcatacactcatactgc
|| |||||||| |||||||| || ||||||||  |||||||||||||| | |||||| | || ||||||||  | || ||||| ||||||||||| |||||| | |  | |   |   | |    ||||    |||  |  | ||   |   |  |  |||  | ||   |||  ||| | || | |  |||| | | | 
CACAAATATGCAAATGAAGACGTGTCGCTTGGATCATGGTTCATTGGTTTGGAAGTTAATCACATTGATGAAAGGAACATGTGCTGTGGAACTCCACCAGgtctgtttcgttgtagagtattg--aacagtggctcctt--tacatgtttgccctctgctttcttctga-attcctgattgtggc-tgtactcctgcag-
















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|254333197|gb|GR850447.1|GR850447
EST:     TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAG                         ACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
genomic: TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacc ... gttcatgtagACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
EST: gi|8283834|gb|BE021393.1|BE021393
EST:     TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAG                         ACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
genomic: TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacc ... gttcatgtagACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
EST: gi|15201966|gb|BI425152.1|BI425152
EST:     TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAG                         ACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
genomic: TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacc ... gttcatgtagACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
EST: gi|12691316|gb|BG157652.1|BG157652
EST:     TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAG                         ACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
genomic: TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacc ... gttcatgtagACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
EST: gi|254333196|gb|GR850446.1|GR850446
EST:     TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAG                         ACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
genomic: TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacc ... gttcatgtagACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
EST: gi|23052817|gb|BU577308.1|BU577308
EST:     TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCC-G                         ATTGTTAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT
genomic: TGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacc ... gttcatgtagACTGTGAGTGGAAGGCACAGGCCGGTAACGTATGTGTTGCATCATTTGATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATAAATATGCTAATGAAGATGTCTCGCTTGGTGCATGGTTCATTGGTCTTGAAGTTGAGCATATTGATGACCGCAATATGTGTTGTGGAACTCCTCCAGgtatataacctgaaaatatgtaaccaacaaacactctctactgcaatatgttctgccacttagtactagtatttgtgactttgtcatacactcatactgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cactctct