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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttttttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT

Basic information

species Glycine max
transcript GLYMA05G22320.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G112056_T01 (Zea mays), 3'ss of exon 1
gtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttt-tttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT
                                                                                          |        |       |  |    |||   |||   |  ||| | |  || |   |   |  || ||  |  |     |||   |  ||| |||| ||||  ||||||||| || |||||||||| |||||||| ||||| ||||||||||||||  |      || |  || ||||| ||| ||||||
-----------------------------------------------------------------------------------------gtaggcacatggagctggagctcggctttacactttgatccccagatttgaatggtgtaaggttttatttctgattcgtctgtccgtgcagGAAGCAGGATGGGTATGAGGTGCTGCGGAAGGTGGGGAGGGGGAAGTACAGCGAGGTGTTCGAAGGGTTCTGGGCCAGGAGCGATGAGAGATGCGTCATT

upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G138774_T01 (Zea mays), 3'ss of exon 2
gtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttt-tttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT
                                                                                          |        ||      |  |    |||   ||    |  ||| | |  || |   |   |  || ||  |  ||    |||   |  ||| |||| ||||  || |||||| || |||||||||| |||||||| ||||| ||||||||||||||  | |    |  |  || ||| | ||| ||||||
-----------------------------------------------------------------------------------------gtaggcacacgaagctggagctcggctttacactgtgatccccagatttgaatggtgtaaggttttatttctgatgcgtctgtccatgcagGAAGCAGGATGGGTACGAGGTGCTGCGGAAGGTGGGGAGGGGGAAGTACAGCGAGGTGTTCGAAGGGTTCCGGGTCGGGAGCGATGAAAGATGCGTCATT

upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G154799_T01 (Zea mays), 3'ss of exon 1
gtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttt-tttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT
                                                                                          |        |       |  |    |||   ||    |  ||| | |  || |   |   |  || ||  |  ||    |||   |  ||| |||| ||||  || |||||| || |||||||||| |||||||| ||||| ||||||||||||||  | |    |  |  || ||||| ||| ||||||
-----------------------------------------------------------------------------------------gtaggcgcacggagctggagctcggctttacactgtgatccccagatttgaatggtgtaaggttttatttctgatgcgtctgtccgtgcagGAAGCAGGATGGGTACGAGGTGCTGCGGAAGGTGGGGAGGGGGAAGTACAGCGAGGTGTTCGAAGGGTTCCGGGCCGGGAGCGATGAGAGATGCGTCATT

upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G23070.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttttttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT
                                                                       | ||| |   | |  ||| || | ||   ||        ||| |  | || || || ||     ||| |      ||| | |||    | |||| ||  |      || |  || |||||||||||||||||||||||||| || ||||| |||||||||||||| || |||||  ||||    || ||    ||||||||||| || 
---------------------------------------------------------------------ggtctatgtga-actagattgttgaattgatatcttgagtttgtatggtgttgttactgttt---ggtgtattagtgttt-gagttagcttcattgatgccgc-----agTGTACAGGATGATTATGAGGTGGTGAGGAAGGTAGGAAGGGGAAAATACAGTGAGGTCTTTGAAGGCATTCATGCTACTGATAACGAGAAATGTGTTATC

upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0129g00270.t01 (Vitis vinifera), 3'ss of exon 1
gtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgt-tattgttgttgttttttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT
                                                                      ||  |||    | ||| | | |   || ||   | | |  ||     |||| | |  |||     ||   |   |||     ||| |||| |||| ||| | |  |  |||||||| || ||||||||||||||||||||||| || ||||||||||||||||| |||||||| || || |||||||| |||  |||||| ||| | |||
---------------------------------------------------------------------gttcgattggataatttgtgtctggatt-ggtcgatagaggtg----gttttatacgcttttaggtgtttgaccgaat-----gtttttgtgtattattgat-tgatgcagGGAGCAGGACGATTATGAGGTGGTGAGGAAGGTTGGGAGGGGGAAATACAGTGAAGTGTTCGAGGGCGTGCACTGCACCGACAATGAGAAGTGTATTATT

upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S63_208V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttttttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT
                                                        |  |  |||||     |     || ||  | |   | | |||  | || | || ||  | | | | || ||  |                      | | |  | ||| ||  ||  ||  || || ||||| ||||| |||||| |  | || || ||  ||||||||||||||||||| || ||||||||||||  |  | || |||||   || || |||
--------------------------------------------------------atgtctctttacagaatggccctttatagt-tgagtaactttttacaagagaactgcatgtatctgttgctgct----------------------gctctgatcatttttactggcttccagAGACCAAGACGATTACGAGGTGATACGTAAAGTAGGGCGGGGGAAATACAGTGAGGTTTTTGAAGGTGTTCACGCCGTGAACAGTGAGCGTTGCGTTATT

upper sequence: GLYMA05G22320.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S165_119V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaacataccggattctccttcctcttttcttttttcttttttcccttccattttcaaatacctttagccttttatttttcattttattttttattttggataacataaatgtctttttttcttccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttttttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT
                                                                   |  || |  || |      |  ||| |||    ||    || |||||      |       ||     ||   || |  | | |   || |  | |  |  | | |||  ||||| ||||| ||||| ||||| ||| | ||||||||  | ||||||||||||||||| || ||||||||  ||  |  | |  |||||   || || || 
-------------------------------------------------------------------gtattcttattgtagagcgacctttcatt----attgggtatatgtcagcaagtgaagtagtt-----gtatcagtaggtgttgaactgat-ctgt--tcatcgatttccagGGACCAAGACGATTACGAGGTAGTGCGTAAGGTGGGGCGAGGGAAATACAGTGAGGTTTTTGAAGGTGTCAACGCCGTGAATAGTGAGCGTTGCGTTATG

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|10847160|gb|BF071497.1|BF071497
EST:     GTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGG                         GGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGT
genomic: GTTCGCCCCAAGGAATATTGGGACTACGAGTCCCTCAACGTCCAGTGGGGgtaacatacc ... tgttttttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttttccaaagtgaaaggaaatttagggttgttgttattgttgttgttttttagGGAGCAAGATGATTATGAGGTGGTGAGGAAGGTGGGTAGGGGGAAATACAGTGAGGTGTTCGAAGGTGTTCACTGCACGGACGGTGAGAAATGTGTCATT
                                            ttgtttttt  CT-rich tract
                                            ttgtttttta  TA-rich tract