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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataaatactgtatagtttacctttactcaagaaaacaataatgaatactgtgactcctggaatactattattaaactgagctgctcctgctgtctgcagTTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGTAGGTTCACGGCTGTAACGTTCCAAGTCCTTGGTC

Basic information

species Glycine max
transcript GLYMA06G15280.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G15280.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G089630_T01 (Zea mays), 3'ss of exon 6
-----tataaatactgtatagtttacctttactcaagaaaacaataatgaatactgtgactcctggaatactattattaaactgagctgctcctgctgtctgcagTTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGTAGGTTCACGGCTGTAACGTTCCAAGTCCTTGGTC
      ||        |||  |  |  ||   ||       |||   |||  |   || |      |    |||| ||   |||         | |  | | ||||| || ||| |  |||| ||||  || || || ||||| ||||| ||||||||||| ||||| || || |||||||| ||  ||||||||||||| ||||
agatccatttgcttgatattataaattttctttctttgctgcaagcttgaccaacctggcc----aagacttattgttttcctgtcacatgttttcctttt-cagTTCTTTATCGTGTTGTCGTGCATAATTGCTGTCGGGACCAACCTAAGCCAGTTCATATGCATCGGAAGATTCACGGCCGTCTCGTTCCAAGTCCTAGGTC

upper sequence: GLYMA06G15280.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g01860.t01 (Vitis vinifera), 3'ss of exon 5
--tataaatactgtata-gtttacctttactcaagaaaacaataatgaatactgtgactcctggaatactattattaaactgagctgctcctgctgtctgcagTTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGTAGGTTCACGGCTGTAACGTTCCAAGTCCTTGGTC
  |||  ||  |    |  || |    |  |   | |  |      | ||  | | | |   ||||| ||  |  | |  ||  |  ||  || |  |||||| |||||||||||||||| ||||| || || ||||| || ||||||||||| |||||||| ||||| || ||||| || ||  | ||||||||  |||| |
tatattcatttttctcatattcatgcatgtttttgcatcctgct-cgtatcgtatcattta-ggaatgctgctgatgatttgccccactt-tgttccctgcagATGTTCATCATTCTGTCCTGCACAATTGCGGTAGGAACCAACCTCAGCCAATTCATCTGTATTGGAAGATTCACTGCAGTGTCCTTCCAAGTGATTGGGC
















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|6847634|gb|AW349924.1|AW349924
EST:     GGTTGACTGGCAAACGAGTTGATGCCTACGGCTATGGTTTGACATCCACG                         TTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAG
genomic: GGTTGACTGGCAAACGAGTTGATGCCTACGGCTATGGTTTGACATCCACGgtaagtttct ... ctgtctgcagTTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAG
EST: gi|4313494|gb|AI460613.1|AI460613
EST:     GGTTGACTGGCAAACGAGTTGATGCCTACGGCTATGGTTTGACATCCACG                         TTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAG
genomic: GGTTGACTGGCAAACGAGTTGATGCCTACGGCTATGGTTTGACATCCACGgtaagtttct ... ctgtctgcagTTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAG
EST: gi|14990478|gb|BI316151.1|BI316151
EST:     GGTTGACGGGCAAACGAGTTGATGCCTACGGCTATGGTTTGACATCCACA                         TTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAG
genomic: GGTTGACTGGCAAACGAGTTGATGCCTACGGCTATGGTTTGACATCCACGgtaagtttct ... ctgtctgcagTTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAG
EST: gi|8284386|gb|BE021945.1|BE021945
EST:     GGTTGACTGGCAAACGAGTTGATGCCTACGGCTATGGTTTGACATCCACG                         TTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAG
genomic: GGTTGACTGGCAAACGAGTTGATGCCTACGGCTATGGTTTGACATCCACGgtaagtttct ... ctgtctgcagTTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atactgtgactcctggaatactattattaaactgagctgctcctgctgtctgcagTTGTTCATCATTCTGTCTTGCACTATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGTAGGTTCACGGCTGTAACGTTCCAAGTCCTTGGTC
                                       ctcctgct  CT-rich tract
                aatactattattaaac  TA-rich tract