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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtgcttatcaaaaagtttgaactcatgctttttgcttgaacaataaatattttttggtctacttttattcttcaagtgtgtaattacattattttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATTGCTAATGAAATACCAATTCATCTTCAAAGATTGCAGTA

Basic information

species Glycine max
transcript GLYMA15G07480.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G07480.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g37740.1 (Oryza sativa), 3'ss of exon 5
-ggtgcttatcaaaaagtttgaactcatgctttttgcttgaacaataaatatttttt--ggtctacttttattcttcaagtgtgtaattacatta-ttttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATTGCTAATGAAATACCAATTCATCTTCAAAGATTGCAGTA
    |  || |||   |||   ||| ||     |  |||   || |||| |||| |   || ||| |    || | | | | | |   || |  | |||| ||||||| |||||  |||||||||| || ||||| |||||| | ||| | ||||||||||||||  | ||||| ||||| | ||| ||||||||| |||| ||
tttagaataacaaggtgttcagactaata----taacttatgcattaaacatttctcacgggctattaaacttatgccactttattggtataacacttttgcagCTGGTATTGTCATTGAGGAGAAAAACTGGCCTCCATTTCTGCCACTCATCCATCATGATATCACCAATGAGATACCGAGTCACCTTCAAAGAATGCAATA

upper sequence: GLYMA15G07480.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G041181_T01 (Zea mays), 3'ss of exon 5
--ggtgcttatcaaaaagtttgaactcatgctttttgcttgaacaataaatattttttggtctacttttattcttcaagtgtgtaattacattattttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATTGCTAATGAAATACCAATTCATCTTCAAAGATTGCAGTA
  ||  ||| |||  ||| ||  | |  | |  | |  || |   | |  |  ||||   ||     ||  |   |     | | ||||  || |||  ||||||| |||||  |||||||||| |||||||| || ||| | ||| | ||||||||||||||  | ||||| ||||| | ||| ||||||||| |||| ||
ctgggccttgtcatgaagatt--atttgttccatgtttttaatataaagctcattttgtttcagaggttgctaagcttacattttattattttgtttggcagCTGGCATTGTCATTGAGGAGAAAAATTGGCCTCCTTTTCTGCCACTCATCCATCATGATATCACCAATGAGATACCGAGTCACCTTCAAAGAATGCAATA

upper sequence: GLYMA15G07480.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 5
ggtgcttatcaaaaagtttgaactcatgctttttgcttgaacaat-aaatatttt-ttggtctacttttattcttcaagtgtgtaatt----acattattttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATTGCTAATGAAATACCAATTCATCTTCAAAGATTGCAGTA
    || ||  || | | || ||| || |  ||| ||  |||    ||| |     || || |     |    || | || |  | ||    || || |||| ||||||||||||||||||||||||| |||||||| ||||| |||||||||||||||||||||||||| ||||||||||| |||||||| ||||  ||||||||
----ctaat--aacattatggacttattcaatttcctcaaacctccaaacaccccattagtttttccatgcaatttacgtttcaagttttctactttgttttccagCTGGAATTGTTCTTGAGGAGAAAAATTGGCCACCATTCTTCCCAATTATCCATCATGATATTGCGAATGAAATACCGATTCATCTACAAAAGTTGCAGTA

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|254315478|gb|GR825287.1|GR825287
EST:     GAAGTCAGACGGAAAGAAGAAGCTGCTGCACGAG                         CTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCC
genomic: GAAGTCAGACGGAAAGAAGAAGCTGCTGCACGAGgtaatttaca ... tattttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCC
EST: gi|298183413|gb|HO028626.1|HO028626
EST:     GAAGTCAGACGGAAAGAAGAAGCTGCTGCACGAG                         CTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCC
genomic: GAAGTCAGACGGAAAGAAGAAGCTGCTGCACGAGgtaatttaca ... tattttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCC
EST: gi|38192157|gb|CF921363.1|CF921363
EST:     GAAGTCAGACGGAAAGAAGAAGCTGCTGCACGAG                         CTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCC
genomic: GAAGTCAGACGGAAAGAAGAAGCTGCTGCACGAGgtaatttaca ... tattttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatattttttggtctacttttattcttcaagtgtgtaattacattattttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATTGCTAATGAAATACCAATTCATCTTCAAAGATTGCAGTA
                                            ttatttt  CT-rich tract
                                  tgtaattacattattt  TA-rich tract