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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagcttcccaggctcccccatgataccatctgtgatctgtctcataattcatgtcttttacctaatacaaaagcaacagttggtaattatgtttctttgtttttatttttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA

Basic information

species Glycine max
transcript GLYMA11G36990.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G36990.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g41010.4 (Oryza sativa), 3'ss of exon 8
gtaagtagcttcccaggctcccccatgataccatctgtgatctgtctcataattcatgtcttttacctaatacaaaagcaacagttggtaattatgtt-tctttgtttttatttttccatt-cagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA
                    || |||   |  |  | ||   |||| | ||   |  ||  ||    ||||      |      ||  |   ||| |  |||||   | || | || |||  |||| | ||||||||| || || || ||||||||||| ||||| || |||||||||||||| ||| | || || || ||| | |  | ||| |  ||||| ||
--------------------ccacattgcataagttatg-cgtgtcacttagcactagttcttg---taatggctttgtcctttttaatt-ctatataatctttacatctaatatttcatggcagAACCAAAGATGCCAGAAGGTAGTTGGAAGTGCGAGAAGTGCAATAACATAAACTATCCATTCCGCACAAAATGTAACCGTCCAAGTTGCGAGGCTGAAAA

upper sequence: GLYMA11G36990.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtagcttcccaggctcccccatgataccatctgtgatctgtctcataattcatgtcttttacctaatacaaaagcaacagttggtaattatgtttctttgtttttatttttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA
                                    ||||  | | |  ||| |     || |||     |    |            ||| | || | |  |    | |||  |  ||||||| |||||||||||||| ||||| |||||||| || ||||||| ||||||||||||||| ||||||||||||||||| |||||||| ||||| || || ||
------------------------------------gtgagttcttttttaacttgctgctattattggctttgcat-----------taactttgatgc--taacataattcatttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA
















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|193303415|gb|FK271601.1|FK271601
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAG
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAG
EST: gi|6501895|gb|AW203268.1|AW203268
EST:     GGATCACAGGCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GGATCACAGGCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|18038859|gb|BM307153.1|BM307153
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|7691169|gb|AW759301.1|AW759301
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|13563438|gb|BG551584.1|BG551584
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|5058405|gb|AI736937.1|AI736937
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGGCTGNAAGTGCGAAAAGTGTAACAACATA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAG-CTGGAAGTGCGAAAAGTGTAACAACATA
EST: gi|15661571|gb|BI698942.1|BI698942
EST:     CAGGCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: CAGGCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|192328140|gb|FK022849.1|FK022849
EST:     GCCTCAAAGTCGGACAAAAATTTTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|254316562|gb|GR828099.1|GR828099
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|14011543|gb|BG726465.1|BG726465
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|23729396|gb|BU762782.1|BU762782
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatacaaaagcaacagttggtaattatgtttctttgtttttatttttccattcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA
 acctaat  putative branch site (score: 3)
                          tgtttctttgttttta  putative PPT
                    taattatgtttctttg  TA-rich tract