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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataagaacactgtttcatggtttatgggagcttacattaaacttacgctaacattcaatccattttggacaatattttgaagattttattttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG

Basic information

species Glycine max
transcript GLYMA09G02490.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G02490.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os12g41170.1 (Oryza sativa), 3'ss of exon 4
-----------------------------ataagaacactgtttcatggtttatgggagcttac---attaaacttacgctaacattcaatccattttg-gacaatattttgaagattttattttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG
                              | ||  ||   | | |   ||  |   ||| | |    || |||||      | | |  ||| | ||   |||  | | ||       |   | | |  | |||||||| ||||||||||| || |||||||| || ||||| |||||| |||||||||| ||||||
gtgagttactcaattgttcaactctactactgagctcatattatgaaaattcctcatagccttctaggttgaactttaatatataattcatcaacttcatgactttgtattaccaccatatgtatgtcgatagGTGGTGCCATGATATTGGCCGGGAACAAGCTGCCAATAAGCCTCTTCTAAAAACAGTATTTCAG

upper sequence: GLYMA09G02490.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G390374_T01 (Zea mays), 3'ss of exon 4
ataaga-acactgtttcatggtttatgggagcttacattaaactta--cgct-aacattcaatc----cattttggacaatattttgaagattttattttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG
 | ||  || |||| | ||  | | |  ||| |  | ||| |||||   | | ||| || | |     || |    ||   |||||     | |  || | |  |||||||||| ||||||||||| || |||||||| || |||||||| ||| |||| || || ||||||
gtgagtcaccctgtatgatattgt-tacgagttccccttagacttatttgttgaacctttagttatcacactacatacttaattttatctctatgtttatgtgtacagGTGGTGCCATGATATTGGCCGTGAACAAGCTGCCAATAAACCACTTCTAAAGACTGTATTTCAG

upper sequence: GLYMA09G02490.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv10s0116g00810.t01 (Vitis vinifera), 3'ss of exon 3
ataagaacactgtttcatggtttatgggagcttacatta-aacttacgctaacattcaatccattttggacaatat---tttgaagattttattttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG
     | ||     ||| |  ||  |    | || ||      | | ||| |   |  ||   | | | || ||||     |  |  ||  || |   | |||||||||| ||||||||||||||||| || || || || ||||||||| | ||||||||||| |||
----aatcatgagatcaagagtttcgcagacataaatggcgggtgatgctcagggtatattgttatagaactatatgagcattgaatttgaatatctattacagGTGGTGCCATGATATTGGTCGAGAGCATGCTGCGAACAAACCTCTTCTGAAAACAGTTTTCCAG

upper sequence: GLYMA09G02490.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ31796 (Selaginella moellendorffii), 3'ss of exon 5
ataagaacactgtttcatggtttatgggagcttacattaaacttacgctaacattcaatccattttggacaatattttgaagattttattttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG
                                       || ||    ||  | |   ||  |||      || ||    ||    || |||  | | |||||||||||||||||||||||||| || ||||| || |||||| |  | || || || ||||||
-------------------------------------gtaagttgttgtagtacttcgtctgttt------atgttcgtcag----tactttcgtaa-agGTGGTGTCATGATATTGGTCGAGAGCACGCAGCCAACAAACCTTTGCTGAAGACCGTCTTTCAG

upper sequence: GLYMA09G02490.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ38064 (Selaginella moellendorffii), 3'ss of exon 4
ataagaacactgtttcatggtttatgggagcttacattaaacttacgctaacattcaatccattttggacaatattttgaagattttattttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG
                                     |||  |  || ||  | |   ||  |||      || ||    ||    || |||  | | |||||||||||||||||||||||||| || ||||| || |||||| |  | || || || ||||||
------------------------------------gtaagttgtcg-tagtacttcgtctgttt------atgttcgtcag----tactttcgtaa-agGTGGTGTCATGATATTGGTCGAGAGCACGCAGCCAACAAACCTTTGCTGAAGACCGTCTTTCAG

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|17023193|gb|BM094227.1|BM094227
EST:     CAGAGTGCTCTTTTTGCTTTGGCAATATCAGATATTGTTCTGATAAACAT                         GTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAA
genomic: CAGAGTGCTCTTTTTGCTTTGGCAATATCAGATATTGTTCTGATAAACATgtaagttttt ... ttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAA
EST: gi|209698106|gb|BW661049.1|BW661049
EST:     CAGAGTGCTCTTTTTGCTTTGGCAATATCAGATATTGTTCTGATAAACAT                         GTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAA
genomic: CAGAGTGCTCTTTTTGCTTTGGCAATATCAGATATTGTTCTGATAAACATgtaagttttt ... ttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgctaacattcaatccattttggacaatattttgaagattttattttattcacagGTGGTGTCATGATATTGGTCGAGAACAAGCAGCAAATAAACCTCTTTTAAAAACAGTTTTTCAG
                                      ttttatttt  CT-rich tract
                attttggacaatattt  TA-rich tract