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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagtcaatccttgatgtttatttcttctttactcactttgaatttgaatggtattattatctcaaacaccccctttttgatccaatagaactgttttatcttaaggggaacatacaattattaaatcttttccttttcgcattttggattttggatatagatctgacactgttgcatgtgactttatttatagGGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGTGATCTTACCAG

Basic information

species Glycine max
transcript GLYMA02G25240.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G25240.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G16630.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaagagtcaatccttgatgtttatttcttctttactcactttgaatttgaatggtattattatctcaaacaccccctttttgatccaatagaactgttttatcttaaggggaacatacaattattaaatcttttccttttcgcattttggattttggatatagatctgacactgttgcatgtgactttatttatagGGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGTGATCTTACCAG
                                                                                                  |   | | |   | || | ||   | || ||  || || | |  | |  |  | | ||  |  |   |   |||||||    | |||  | |||   |||| |||||||| |||||||||||||||||||| || | ||| ||||| || ||  |   |||
-------------------------------------------------------------------------------------------------gtaagtataagaagcaaaaaacttattttcaagattctcttctcagtagctctgctatttaacctc--ttgaacactgtctgctttga--tcattc-cagGGACTTGACATCATTGGTGTTCAAACAGTTATAAATTATGCTTGTCCTCGGGAAATAGACAG

upper sequence: GLYMA02G25240.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 10
gtaagagtcaatccttgatgtttatttcttctttactcactttgaatttgaatggtattattatctcaaacaccccctttttgatccaatagaactgttttatcttaaggggaacatacaattattaaatcttttccttttcgcattttggattttggatatagatctgacactgttgcatgtgactttatttatagGGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGTGATCTTACCAG
                                                                                        || ||  |     |        | |  ||| |||   | ||  |   || | |    ||||   |||| | |  |||||| || || |||   ||| || |   | ||||| |||||||| |||||||||||||||||||| |||| ||||||||| ||||||||||||||
---------------------------------------------------------------------------------------catggacatacacaaggagttcagcagtataaaatggatgaaaataaaccatgttttttttt---tttttggtg-agatctcac-cttttg---gtgcctct--ctgtagGGACTTGACATAATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG
















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|254340268|gb|GR858393.1|GR858393
EST:     TCAGGAAGCAGCAAGTGGATTTTTTGGTTGCAACAGATGTGGCTGCCCGT                         GGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGT
genomic: TCAGGAAGCAGCAAGTGGATTTTTTGGTTGCAACAGATGTGGCTGCCCGTgtaagagtca ... ttatttatagGGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGT
EST: gi|254340269|gb|GR858394.1|GR858394
EST:     TCAGGAAGCAGCAAGTGGATTTTTTGGTTGCAACAGATGTGGCTGCCCGT                         GGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGT
genomic: TCAGGAAGCAGCAAGTGGATTTTTTGGTTGCAACAGATGTGGCTGCCCGTgtaagagtca ... ttatttatagGGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattttggattttggatatagatctgacactgttgcatgtgactttatttatagGGCCTTGACATTATTGGTGTTCAAACAGTTATCAACTTTGCATGTCCACGTGATCTTACCAG
                      atctgac  putative branch site (score: 3)
                                           ctttattt  putative PPT
                                        tgactttatttata  TA-rich tract