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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtatggtggaatgcaactcttttttctttctagaattttctctttggaaaaatgttcctaactacgttgttctgcaacagCTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGCCTGATAGGAAATCTGTTTTGGATCTTCTTAATTGTCAATGAGAATACTC

Basic information

species Glycine max
transcript GLYMA15G38510.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G38510.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g47550.1 (Oryza sativa), 3'ss of exon 3
-----------------gtgtgtatggtggaatgcaactcttttttctttctagaattttctc---tttggaaaaatgttcctaactacgttgttctgcaacagCTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGCCTGATAGGAAATCTGTTTTGGATCTTCTTAATT---GTCAATGAGAATACTC
                    |      | || ||||| |  ||| |  ||||  ||  ||  |    || |    | | | | |  | |  | ||      |||||||||| || | ||| ||||||||||| |||||||||   ||||||||||||||  | ||||| ||  |||| |||||  | |    |||    |||||   
gtactgaaagcaccctctcctcgtcatttgattgcaattgatttcttgttcttcaacattagcatactttgcttgaggcttcaatttccaatttttaatttcagCTGCTGCTGCATCTCTATGTGTTCAAGTAAAGGGAGCCATACCCAGCATGCCTGACCGAAAATCAGTAATGGACCTTCTGGAATCTGTTCAGGTTGAATA---

upper sequence: GLYMA15G38510.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0014g00180.t01 (Vitis vinifera), 3'ss of exon 3
---gtgtgtatggtggaatgcaactcttttttctttctagaattttctctttggaaaaatgttcctaactacgttgttctgcaacagCTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGCCTGATAGGAAATCTGTTTTGGATCTTCTTAATTGTCAATGAGAATACTC
      |  |  |||   |    |  |||| ||  | || |  |  |   |    ||  |  ||  || | | |     |   |||||||||||||||| ||| ||||||||||||||||| |||  ||| ||||||||||| ||    || ||||||||||||||  |       |||        
gtaagattaactgtgtcctttcccagttttctccatgtacacatcccatataactaagtttctcacaattgcttgccatttgtacagCTGCTGCAGCTTCTCTCTGTGTTCAAGTGAAGGGGGCCATTCCAAGCATGCCTGACAGACGGTCAGTTTTGGATCTTCTACAGACCTGTTGA--------
















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|57574363|gb|CX547338.1|CX547338
EST:     TGTGGCCTTGGTTGAGGGAAAGTCCAAAAAGGAATGCCTCAGATTTGCTG                         CTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGC
genomic: TGTGGCCTTGGTTGAGGGAAAGTCCAAAAAGGAATGCCTCAGATTTGCTGgtgtgtatgg ... tctgcaacagCTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGC
EST: gi|57574195|gb|CX547170.1|CX547170
EST:     TGTGGCCTTGGTTGAGGGAAAGTCCAAAAAGGAATGCCTCAGATTTGCTG                         CTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGC
genomic: TGTGGCCTTGGTTGAGGGAAAGTCCAAAAAGGAATGCCTCAGATTTGCTGgtgtgtatgg ... tctgcaacagCTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGC
EST: gi|208160642|gb|GD958812.1|GD958812
EST:     TGTGGCCTTGGTTGAGGGAAAGTCCAAAAAGGAATGCCTCAGATTTGCTG                         CTGCTGCAGCTTGTCT
genomic: TGTGGCCTTGGTTGAGGGAAAGTCCAAAAAGGAATGCCTCAGATTTGCTGgtgtgtatgg ... tctgcaacagCTGCTGCAGCTTGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttctagaattttctctttggaaaaatgttcctaactacgttgttctgcaacagCTGCTGCAGCTTGTCTTTGTGTTCAAGTGAAGGGAGCCTCTCCCAGCATGCCTGATAGGAAATCTGTTTTGGATCTTCTTAATTGTCAATGAGAATACTC
                              tcctaac  putative branch site (score: 1)
                                         ttgttct  putative PPT
     tagaatttt  TA-rich tract