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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacattgagagagtggtagcttaaagtcattaattaaaggatgaaactcttaagcacatttacttgcttggtctttgcagGCTGCATATAATGTTGGGGGTCATACAATTAGTGCAGACACAATACAAAATACTATACTCAAGTGTCGGATGTCTCGCCCGGGACAG

Basic information

species Glycine max
transcript GLYMA11G06610.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G06610.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0207g00120.t01 (Vitis vinifera), 3'ss of exon 10
gtaaacattgagagagtggtagcttaaagtcattaattaaaggatgaaactcttaagcacatttacttgct--tggtctt------tgcagGCTGCATATAATGTTGGGGGTCATACAATTAGTGCAGACACAATACAAAATACTATACTCAAGTGTCGGATGTCTCGCCCGGGACAG-------------
           |  |  ||   | | | |  ||   ||||  || |||| |||  |     |||| || ||  || ||||      | |||||||| ||||||||||| ||||| ||||| ||||||||||||||||| ||| | || ||    ||||| || ||||| || ||||||             
-----------gtaaaaggagccctcatgatatcttttaattgaggaaattctgtatggattttattttctcatgatcttgcatattacagGCTGCCTATAATGTTGGAGGTCAAACAATAAGTGCAGACACAATACAGAATTCCATCCTTGGATGTCGAATATCTCGTCCAGGACAGGTTGGATCCCATG

upper sequence: GLYMA11G06610.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0207g00150.t01 (Vitis vinifera), 3'ss of exon 7
gtaaacattgagagagtggtagcttaaagtc-attaattaaaggatgaaactcttaagcacatttacttgcttggtctttgcagGCTGCATATAATGTTGGGGGTCATACAATTAGTGCAGACACAATACAAAATACTATACTCAAGTGTCGGATGTCTCGCCCGGGACAG
|||||    |      || || |||  | |  |  || |   | ||| |  |  |   | |||   ||||| |     || |||||||| ||||||||||| ||||| ||||| ||||||||||||||||| ||| | || ||    ||||| || ||||| || ||||||
gtaaaaggagcccccatgatatcttttaattgaggaaattctgtatggattttattttctcatgatcttgcata----ttacagGCTGCCTATAATGTTGGAGGTCAAACAATAAGTGCAGACACAATACAGAATTCCATCCTTGGATGTCGAATATCTCGTCCAGGACAG
















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|21601375|gb|BQ611706.1|BQ611706
EST:     CTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTTTTGAAG                         GCTGCATATAATGTTGGGGGTCATACAATTAGTGCAGACACAATACAAAAT
genomic: CTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTTTTGAAGgtaaacattg ... gtctttgcagGCTGCATATAATGTTGGGGGTCATACAATTAGTGCAGACACAATACAAAAT
EST: gi|14259677|gb|BG882585.1|BG882585
EST:     CTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTTTTGAAG                         GCTGCATATAATGTTGGGGGTCATACAATTAGTGCAGACACAATACAAAAT
genomic: CTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTTTTGAAGgtaaacattg ... gtctttgcagGCTGCATATAATGTTGGGGGTCATACAATTAGTGCAGACACAATACAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcattaattaaaggatgaaactcttaagcacatttacttgcttggtctttgcagGCTGCATATAATGTTGGGGGTCATACAATTAGTGCAGACACAATACAAAATACTATACTCAAGTGTCGGATGTCTCGCCCGGGACAG
  cattaat  putative branch site (score: 3)
                                              tctttgc  putative PPT
     taattaaa  TA-rich tract