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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agacaaatgttaattgcattgttatttgaaatatgttacagtttctatccatttatgactatgagggtgcttattcattgctttgataattttcttgcagAAATTTTTTCTTCAAGGGAGGTTCATATTTGGACCAGATGTGAGATCACTGGCACTGACAATTATTCTTATCGTTGCTCCTGTCGCAGTTTTCTGTGTCT

Basic information

species Glycine max
transcript GLYMA16G05670.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G05670.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM5G868588_T01 (Zea mays), 3'ss of exon 1
agacaaatgtta-attgcattgttatttgaaa-tatgttacagtttctatccatt-tatgactatgagggtgcttattcattgctttgataattttcttgcagAAATTTTTTCTTCAAGGGAGGTTCATATTTGGACCAGATGTGAGATCACTGGCACTGACAATTATTCTTATCGTTGCTCCTGTCGCAGTTTTCTGTGTCT
   |   | ||| | | || |  | |  ||   |  |  || |  |||  ||||| | | |||||     |||   || | |    ||||| | || |  ||| | |||||  | |||||  |||||||||||||||| |||||||||||| ||   || || ||  | || ||  |||| ||  | |  || |||||| | |
-tccctttcttagactccactcatgtgggagcctccgacactggatctgcccattgtttcactattgcaatgccatttaagtttgctgatattctttt--cagGAGTTTTTCTTGCAAGGCCGGTTCATATTTGGACCTGATGTGAGATCATTGTTTCTCACCATATTCCTCATTCTTGCGCCAATGGTGGTCTTCTGTATAT

upper sequence: GLYMA16G05670.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 1
---agacaaatgttaat-tgcattgttatttgaaatatgttacagtttctatcc--atttatgactatgagggtgcttattcattgctttgataattttcttgcagAAATTTTTTCTTCAAGGGAGGTTCATATTTGGACCAGATGTGAGATCACTGGCACTGACAATTATTCTTATCGTTGCTCCTGTCGCAGTTTTCTGTGTCT
    |   | ||||    || ||  || ||     |  |  | | ||| |   |  |  | |  |||   || || |||||  | || ||     || | ||||||| ||| |||||||| || |||||  ||||||| |||||||| ||||||||||| ||||| |||  ||| || | ||  |||||  || |||||||  |||
gctggtgtattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattt-tcgcgtt-----ttattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT

upper sequence: GLYMA16G05670.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 1
--agacaaatgttaattgcatt-gttatttgaaatatgttacagtttctatccatttatgactatgagggtgcttattcattgctttgataattttcttgcagAAATTTTTTCTTCAAGGGAGGTTCATATTTGGACCAGATGTGAGATCACTGGCACTGACAATTATTCTTATCGTTGCTCCTGTCGCAGTTTTCTGTGTCT
  |||||  |     ||| |||  |||| || ||    | |    |  | |  ||||        | |    | |   |||   ||| || | ||   |||||| |||||||||||| |||||| | ||||||||||| ||||| ||||| ||||  ||||| ||  | ||||| |||||||||||  | |||||||||||||
ttagacatttaaggtttgaattcattatgtggaaatgataatgagtgttttttatttccatgctcggg---acgtcaccatctgtttcattacttgtctgcagATATTTTTTCTTCAGGGGAGGCTTATATTTGGACCCGATGTTAGATCTCTGGGGCTGACCATATTCCTTATTGTTGCTCCTGTTACGGTTTTCTGTGTCT

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|192294174|gb|FG986263.1|FG986263
EST:     GGTCAGGATCCGGTGATTTGCGGGTCTACCAAGCTTGGAAGGGTAGCAAT                         AAATTTTTTCTTCAAGGGAGGTTCATATTTGGACCAGATGTGAGATCACTG
genomic: GGTCAGGATCCGGTGATTTGCGGGTCTACCAAGCTTGGAAGGGTAGCAATgtgagtttaa ... tttcttgcagAAATTTTTTCTTCAAGGGAGGTTCATATTTGGACCAGATGTGAGATCACTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatccatttatgactatgagggtgcttattcattgctttgataattttcttgcagAAATTTTTTCTTCAAGGGAGGTTCATATTTGGACCAGATGTGAGATCACTGGCACTGACAATTATTCTTATCGTTGCTCCTGTCGCAGTTTTCTGTGTCT
                                   ctttgat  putative branch site (score: 5)
                                            ttttcttgc  putative PPT
                                    tttgataattttctt  TA-rich tract