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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaaattcttagtcctgtttctgtcattttttgcaagtatgaaatttttttcttcccttttttccccttcctcttttgatgatgattttcaatttttggtttccagGATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTGATGGCTGAGTTTCCATCAGCCAAACCTCCACTAGGTGTTTTTTTTGCTG

Basic information

species Glycine max
transcript GLYMA06G10180.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G10180.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 11
-----------------------------------------------------------------------gtaaaaaattcttagtcctgtttctgtcattttttgcaagta--tgaaatttttttcttcccttttttccccttcctcttttgatgatgattttcaatttttggt-ttccagGATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTGATGGCTGAGTTTCCATCAGCCAAACCTCCACTAGGTGTTTTTTTTGCTG
                                                                        |  |   |   |    || | ||| ||  | |  |    |   || | | ||  | || |   ||||   ||   | | || ||  || | ||   ||| |  | |||||||||||||||||  ||||||| |||||||| ||||| |||||||||||||| ||||||||||| || ||||| |||||||| || |||||||| ||||| |
gtcaacaaacaactgatgtttttatcttcctctcctcttccccctcaacatccaaattcctgtttcctttttttcattctctctctctctctctctctctctctcgggggatggttgtagtgttggtgttgcaggttttttgctgaatttatttat--tggtcttatgtttcttatattccagGATGAGTACTCACAATGGGTTGTTGGAAGTCAGAGGAGTCTCCTTGAGGTAATGGCTGAGTTCCCTTCAGCGAAACCTCCCCTCGGTGTTTTCTTTGCAG
















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|15200214|gb|BI424233.1|BI424233
EST:     AACCTAGCGAAGCAGAAAGATTAAAGTTCCTTTCGTCTCCTCAGGGGAAG                         GATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTG
genomic: AACCTAGCGAAGCAGAAAGATTAAAGTTCCTTTCGTCTCCTCAGGGGAAGgtaaaaaatt ... tggtttccagGATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTG
EST: gi|23729064|gb|BU762615.1|BU762615
EST:     CTTTCGTCTCCTCAGGGGAAG                         GATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTG
genomic: CTTTCGTCTCCTCAGGGGAAGgtaaaaaatt ... tggtttccagGATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTG
EST: gi|23064310|gb|BU579092.1|BU579092
EST:     AACCTAGCGAAGCAGAAAGATTAAAGTTCCTTTCGTCTCCTCAGGGGAAG                         GATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTG
genomic: AACCTAGCGAAGCAGAAAGATTAAAGTTCCTTTCGTCTCCTCAGGGGAAGgtaaaaaatt ... tggtttccagGATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTG
EST: gi|17400562|gb|BM177344.1|BM177344
EST:     AACCTAGCGAAGCAGAAAGATTAAAGTTCCTTTCGTCTCCTCAGGGGAAG                         GATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTG
genomic: AACCTAGCGAAGCAGAAAGATTAAAGTTCCTTTCGTCTCCTCAGGGGAAGgtaaaaaatt ... tggtttccagGATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcccttttttccccttcctcttttgatgatgattttcaatttttggtttccagGATGAGTACTCCAAATGGGTGGTTGGAAGCCAGAGAAGTCTCCTTGAGGTGATGGCTGAGTTTCCATCAGCCAAACCTCCACTAGGTGTTTTTTTTGCTG
                      ttttgat  putative branch site (score: 4)
                                         ttttt  putative PPT
                              atgattttcaattttt  TA-rich tract