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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attgaaatcttctgctcatggatatgaacacttgatttgtttgctttcgtcctttaatattaatttgattctgacactgtcatgtatatatatttgtcagCATTAGAGGAACCACGGCTGTTGAGATTGCATCTGGCCTCCATTGGTATCTTAAGTATTGGTGTGGTGCTCATGTCTCATGGGATAAGACAGGTGGCATT

Basic information

species Glycine max
transcript GLYMA10G11720.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G11720.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G033592_T01 (Zea mays), 3'ss of exon 2
-attgaa-atcttctgctcatggatatgaacacttgatttgtttgctttcg-tcctttaatattaatttgattctgacactgtcatgtatatatatttgtcagCATTAGAGGAACCACGGCTGTTGAGATTGCATCTGGCCTCCATTGGTATCTTAAGTATTGGTGTGGTGCTCATGTCTCATGGGATAAGACAGGTGGCATT
  ||||  ||        || |||     | | ||| |   |||| ||| | ||| ||   |  |  |  || |   |||       | | |||| |   ||| ||    |||||||| ||||||||| ||||||||||||| ||||||||| | || || |||||||| || ||| |||| ||||| ||||| || ||    
agttgagcattgagaatgcaaggactgccaaaattg-tacatttgttttggctccgttggga--aggtgaatgcaatcacctcttcatgtttatactaaacagGATCCAGGGAACCACAGCTGTTGAGCTTGCATCTGGCCTACATTGGTATTTGAAATACTGGTGTGGCGCACATATCTCCTGGGACAAGACTGGGGGTGCC

upper sequence: GLYMA10G11720.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0064g00370.t01 (Vitis vinifera), 3'ss of exon 2
----attgaaatcttctgctcatggatatgaacacttgatttgtttgctttcgtcctttaatattaatttgattctgacactgtcatgtatatatatttgtcagCATTAGAGGAACCACGGCTGTTGAGATTGCATCTGGCCTCCATTGGTATCTTAAGTATTGGTGTGGTGCTCATGTCTCATGGGATAAGACAGGTGGCATT
     || |  | ||  |   || ||  |      | ||      |   || ||  ||| |   |  ||||    || |   |   | ||||| | | | |||| |||| ||| ||||| || ||||| |||||||||||||| ||||||||  | || |||||||||||||||||||| || ||||| ||||||||  |||||
tatggttcaggttttaagag-atagacctaggtgatggaaactgctctcttggttatttcaccct--tttgtcaatgtcttgggtgt-tatatttttctttcagGATTAAAGGCACCACAGCAGTTGAAATTGCATCTGGCCTTCATTGGTACATAAAATATTGGTGTGGTGCTCATGTTTCTTGGGACAAGACAGGCAGCATT
















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|209718689|gb|BW674779.1|BW674779
EST:     TTTCTAATAAACAATCACAACAAGTCAAGCCAGAATGAGCCTGAGATTAT                         CATTAGAGGAACCACGGCTGTTGAGATTGCATCTGGCCTCCATTGGTATCT
genomic: TTTCTAATAAACAATCACAACAAGTCAAGCCAGAATGAGCCTGAGATTATgtatgtcaga ... tatttgtcagCATTAGAGGAACCACGGCTGTTGAGATTGCATCTGGCCTCCATTGGTATCT
EST: gi|209728536|gb|BW663536.1|BW663536
EST:     TTTCTAATAAACAATCACAACAAGTCAAGCCAGAATGAGCCTGAGATTAT                         CATTAGAGGAACCACGGCTGTTGAGATTGCATCTGGCCTCCATTGGTATCT
genomic: TTTCTAATAAACAATCACAACAAGTCAAGCCAGAATGAGCCTGAGATTATgtatgtcaga ... tatttgtcagCATTAGAGGAACCACGGCTGTTGAGATTGCATCTGGCCTCCATTGGTATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgtcctttaatattaatttgattctgacactgtcatgtatatatatttgtcagCATTAGAGGAACCACGGCTGTTGAGATTGCATCTGGCCTCCATTGGTATCTTAAGTATTGGTGTGGTGCTCATGTCTCATGGGATAAGACAGGTGGCATT
                       ttctgac  putative branch site (score: 2)
       tttaatattaatttga  TA-rich tract