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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acacattgaccaatcatatatcaaggacagaagatgaccatttatgcagaagaatgctacctagattgttggctgctaatacattaggacatttgtgcagATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCAGCATCTGTTCATTGTGTTCGTGCTTTTGGTGATCTTCTTGAGCTAATGA

Basic information

species Glycine max
transcript GLYMA16G26700.4
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G26700.4 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g48820.2 (Oryza sativa), 3'ss of exon 4
acacattgaccaatcatatatcaaggacagaagatgaccat---ttatgcagaagaatgctacctagattgttggctgctaatacattaggacatttgtgcagATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCAGCATCTGTTCATTGTGTTCGTGCTTTTGGTGATCTTCTTGAGCTAATGA
    ||        |||||| |     |   |  |     |   | |||   |||  |  | ||   | |        |  |  |   |  | ||   ||||| ||||||| ||   |||||| ||||||||||| || ||||| ||||| || |  |||||||||||||| || || |||||||||||||| ||| || | |
---aatcactaggccatataacctatgcctcaagtccttttgcatcatgagcaagctttatgccaccaataagactatcagaagctaaaaaatatcactgcagGTTGAAGTTTTCCAGCAGCAACTTGAACTTGCTAAGGAGTTGAACAAGCCTGTTTCTGTTCATTGTGTGCGCGCCTTTGGTGATCTTCTGGAGATACTAA

upper sequence: GLYMA16G26700.4 (Glycine max), 3'ss of exon 3
lower sequence: AT5G17570.1 (Arabidopsis thaliana), 3'ss of exon 4
acacattgaccaatcatatatcaaggacagaagat-gaccatttatgcagaagaatgctacctagattgttggctgctaatacattagga--catttgtg----cagATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCAGCATCTGTTCATTGTGTTCGTGCTTTTGGTGATCTTCTTGAGCTAATGA
                  | |||       || |  |||| | |    | | |  |  |      | || |||||  | || |   ||    ||||| |     ||| ||   || ||  | || ||||||||||||||||| || || || ||||| || || ||||||||||||||||| ||||| ||||| || ||| || | |
-----------------gtttcagaattgaaaaacagaccttgtggttaaatggtttatgttctcagtgatggcttttgatgctaaagacatcatttttaatttcagGTTACCGTCTTTCGTCAACAGCTTGAACTTGCAAAGGAATTGAAGAAACCTGCGTCAGTTCATTGTGTTCGTGCATTTGGGGATCTACTCGAGATATTAA

upper sequence: GLYMA16G26700.4 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0024g00050.t01 (Vitis vinifera), 3'ss of exon 5
----acacattgaccaatcatatatcaaggacagaagatgaccatttatgcagaagaatgctacctagattgttggctgctaatacattaggacatttgtgc-agATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCAGCATCTGTTCATTGTGTTCGTGCTTTTGGTGATCTTCTTGAGCTAATGA
    || |    ||         || |  ||  |   | ||    || | |   |  ||| |   |  |    |      | ||   ||      | ||| | || ||||||| ||   ||| |||||||||||||| |||||||| || | |||||  ||||| ||||| |||||||||||||||||||||||| || ||||| 
tcctactctcctacttgcttctgataatagaatgctaaagagatgttttccttgaagatgttttgtgaaacagt-----tttatttgtttaattttctgttccagGTTGAAGTTTTCCAGCAACAGCTTGAACTTGCCAAAGAGTTGAAAAGACCAGTTTCTGTCCATTGCGTTCGTGCTTTTGGTGATCTTCTTCAGATAATGC

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|254335705|gb|GR847233.1|GR847233
EST:     TTGGTGTGGACAAAGGATCACACGGAAAGAAGATTGATTTTTCTGAGCAG                         ATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCA
genomic: TTGGTGTGGACAAAGGATCACACGGAAAGAAGATTGATTTTTCTGAGCAGgtattagctt ... atttgtgcagATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCA
EST: gi|254341606|gb|GR852743.1|GR852743
EST:     TTGGTGTGGACAAAGGATCACACGGAAAGAAGATTGATTTTTCTGAGCAG                         ATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCA
genomic: TTGGTGTGGACAAAGGATCACACGGAAAGAAGATTGATTTTTCTGAGCAGgtattagctt ... atttgtgcagATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcagaagaatgctacctagattgttggctgctaatacattaggacatttgtgcagATTGAAGTATTGAGGCAGCAGCTTGAACTTGCAAAAGAGTTAAACAAACCAGCATCTGTTCATTGTGTTCGTGCTTTTGGTGATCTTCTTGAGCTAATGA
                            tgctaat  putative branch site (score: 2)
                               taatacatta  TA-rich tract