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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataattccatttgatttctatgtccaccccattctaaaggtgcagacactgctctcttgatgctgatataagaaatttgttatatatctggctgcgtagGTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA

Basic information

species Glycine max
transcript GLYMA19G43320.4
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G43320.4 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os07g31460.2 (Oryza sativa), 3'ss of exon 13
--tataattccatttgatttctatgtccaccccattctaa-aggtgcagacactgctctcttgatgctgatataagaaatttgttatatatctggctgcgtagGTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA
    || || |||    |||  | |  ||     ||| || || |  | |||    | | |   || |   || | |  | | | | |||      |    ||| |||||| |  | || |  |   |||||  | | |  |  ||| | |   ||||||| ||||||||||| |||||||  ||||| ||||||||||||||
tcagtattttcatgctgtttaaaagaacatgtgtttcaaatagttataaacataaattt-tcactgttcccattatat-tatctaacatagtcattttt-cagGATGTTGGATAATTTACAAGATGCTTGATGGCCAAACTTGCGAGTTGGATTCATATGATTTGATGTCAGCTAATGATGTTCCAGAGAGGGATCCAATGGA

upper sequence: GLYMA19G43320.4 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G474236_T01 (Zea mays), 3'ss of exon 6
tataattccatttgatttctatgtccaccccattctaaaggtgcag---acactgctctcttgatgctgatataagaaatttgttatatatctggctgcgtagGTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA
  |  ||   |  ||| | | |    |  |  |   ||  ||       ||||   |    |  |  |||| |     ||  | ||   |    | |  | ||| |||||| |  | |||| ||     |||  ||| |  |  ||| | |   ||||||| ||||||||||| |||||||| ||||| ||||||||||||||
--tttttgtgtgcgatgt-tgtaaagatgctgtctaaagtgtttcaagtacacgtgttgaattttattgatctgctgtatcggctaacaaaggagttatgcagGATGTTGGCTGATTTATACAATGCAAGATGGCAAAAGTTGCGAGTTGGAGTCATATGATTTGATGTCAGCTAATGATGCTCCAGAGAGGGATCCAATGGA

upper sequence: GLYMA19G43320.4 (Glycine max), 3'ss of exon 14
lower sequence: Vv14s0030g01930.t01 (Vitis vinifera), 3'ss of exon 14
tataattccatttga-tttctatgtccaccccattctaaaggtgcagacactgctctcttgatgctgatataa-gaaatttgtta--tatatctggctgcgtagGTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA---
     ||  ||  || ||| | | ||     ||| |  |  |     |   |   |||  | |  | |||| | |   |||  ||  |  || |||    |||||||||||| |  | || | |  |    | || ||||||   || ||||  |||||||||||||||||||| |||||||| ||||| || |||||||||||   
----tttatatgagagtttttctctctttatcatccgcacagcctcaagttttaactcacgtttattatattatgtgttttaataattgaatttggtcttgtagGTTGTTGGATTATATACAAAGTA---AACAATAAGATGCAAGAACTTGTGGCATATGAGTTGATGTCAGCTAATGATGCTCCAGAGAGAGATCCAATGGATTG

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|192299647|gb|FG987750.1|FG987750
EST:     ATTTGATGGCACTCGAATGTCTAAATGGGAAGAACCAAATGGAGGAAGAG                         GTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAG
genomic: ATTTGATGGCACTCGAATGTCTAAATGGGAAGAACCAAATGGAGGAAGAGgtatggttag ... ggctgcgtagGTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAG
EST: gi|207746060|gb|GD717786.1|GD717786
EST:     ATTTGATGGCACTCGAATGTCTAAATGGGAAGAACCAAATGGAGGAAGAG                         GTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAG
genomic: ATTTGATGGCACTCGAATGTCTAAATGGGAAGAACCAAATGGAGGAAGAGgtatggttag ... ggctgcgtagGTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacactgctctcttgatgctgatataagaaatttgttatatatctggctgcgtagGTTGTTGGGTCGTGTATAGAACATTTGATAACAAGATGTTTGAGCTTGCAGCATATGAGTTGATGTCAGCCAATGATGCACCAGAAAGGGATCCAATGGA
                tgctgat  putative branch site (score: 3)
                   tgatataagaaatttg  TA-rich tract