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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtttcatttcctttacttgtgtttggattaggaatttcgggaatttgaaatgcctagaatttaaattgctttgattttaatttccttcatttttcaaatg...

Basic information

species Glycine max
transcript GLYMA05G03270.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 21
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtt---tcatttcctttacttgtgtttggattaggaattt-cgggaatttgaaatgcctagaatttaaattgctttgattttaatttccttcatttttcaaatg
||||||||||||  | ||||| || || || |||||||||||| |||||||||||||| | || ||||||||| | || ||||| || ||  |||| |||||     | ||    | | || |   ||  | |         |  |  |||   |  ||  | | ||  ||||   |   || |||    |  ||| |||| | 
TGATATTGGAGCCTTGGAAAATGTAAAAGACACATTGAAGGAGCTGGTGATGCTTCCTCTGCAAAGGCCTGAATTGTTCTGCAAAGGACAGCTAACGAAGgtagagacgttatgatgaattatccatgtctcatatgcgggtgtaagattgttctatctcaattataggttgc---gcacttgattagagtgttttgtcaagt-

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G042074_T01 (Zea mays), 5'ss of exon 21
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtttcatttc----ctttacttgtgtttggattaggaatttcgggaatttgaaatgcctagaatttaaattgctttgattttaat-ttccttcatttt-tcaaatg
 || ||||||||| | ||||  ||||| |||||  |||||||||| |||||||||||||| || || ||||||||||||  |   || ||| | |  ||||| | |||||     ||||  |    |  | | || |  |||      |     |  | | |||     || | |  | || | |  |  | ||| || |   |  
GGACATTGGAGCTTTAGAAAGTGTCAAAGATACTCTGAAGGAGTTAGTGATGCTTCCTTTGCAAAGACCTGAACTTTTTAACCGAGGACAACTTATGAAGgtat-atttcaaaattttagcttcactatggtgagaaggttctatggatgcgtttttccataatgc---tttcatatacttcagtacttatccatcttgttgga--

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G157621_T03 (Zea mays), 5'ss of exon 21
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtttcatttcctttacttgtgtttggattaggaatttc--gggaatttgaaatgcctagaatttaaattgctttgattttaatttccttcatttttcaaatg
 |||||||||||  | ||||| |||||||| || ||| ||||||| || ||||||||||| || ||||||||  | || | ||| || ||| | |  |||||         | | ||    |||| | |  ||   ||  |  ||  | | ||  ||  |  || | |       |      | | |     |   | ||| 
GGATATTGGAGCATTAGAAAATGTCAAGGAAACTTTGCAGGAGTTAGTTATGCTTCCTTTGCAAAGGCCTGAGTTGTTCTCCAAAGGACAACTTATGAAGgtactggccattct-ctaaactttgaagtgtgaccctcttgaaaacctaatatatctgtatgtttagtaatccataagggcttgttcggttctaccccaat-

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G052403_T01 (Zea mays), 5'ss of exon 12
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtt---tcatttcctttacttgtgtttggattagg--aatttcgggaatttgaaatgcctagaatttaaattgctttgattttaatttccttcatttttcaaatg
||||||||||||  | || || || ||||| ||||| |||||| |||||||||| |||||||| || |||||| | || ||||| |||||  |||| |||||    ||||      || || |||||| | | ||   ||| |  ||  |   |  |  |    |  |   |   ||||   ||   |   | |||||||     
TGATATTGGAGCCTTGGAGAATGTAAAGGACACATTAAAGGAGCTGGTGATGCTCCCTTTACAAAGACCTGAATTGTTCTGCAAAGGGCAGCTAACAAAGgtagcatcataatgcctaattatgtttgaaatcggttcattacatgaggtgtcagagttttctttcaaccgtaggttgaccatatggttgat-atttttct----

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 17
lower sequence: AT1G62130.1 (Arabidopsis thaliana), 5'ss of exon 20
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtttcatttcctttacttgtgtttggatt-aggaatttcgggaatttgaaatgcctagaatttaaattgctttgattttaatttccttca---tttttcaaatg-
||| ||||| || ||||| || ||||| || || || |||||  |||| ||||||||||| ||  ||||||||||||| ||||||||||||||||| |||||     ||   |||   |  ||||| || ||||| |||    |||     |  |||     |   | |  |||||   |  |   |  |     ||| |  || 
TGACATTGGGGCACTTGAGAATGTCAAAGACACTTTAAAGGAACTGGTTATGCTTCCTTTTCAATGGCCTGAACTTTTCTGCAAGGGGCAATTAACAAAGgt---ggttgtcttatccgcatttggttttaggaaattcccatatt--gtttcactatgtcctgcctcgaattgatgacagatctgtgaaggaccttttatttgt

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 17
lower sequence: AT4G24860.1 (Arabidopsis thaliana), 5'ss of exon 20
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgt--ttcatttcctttacttgtgtttggattaggaatttcgggaatttgaaat---gcctagaattta----aattgctttgattttaatttccttcatttttcaaatg
||| ||||| || ||||| || ||||| ||||  || |||||  |||| ||||||||||||||  ||||||||||||| ||||||||| ||||||| |||||  |||  |||  |   || |||||     |             |||||  |   |||| | |||||    |  || | |||    |||  | || ||||        
TGACATTGGGGCACTTGAGAAAGTCAAAGATATCTTAAAGGAACTGGTTATGCTTCCTTTACAACGGCCTGAACTTTTCTGCAAGGGGGAATTAACAAAGgtggttctcttctctgcattatgtttcagaaaactcccataattttttgaggtcctgcctcggatttatcacagatg-tatgaaggaaataccttttattt--------

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttt---catttcctttacttgtgtttggattaggaatttcgggaatttgaaatgcctagaatttaaattgctttgattttaatttccttcatttttcaaatg
||||||||| || || ||||| |||||||| ||||||||||||||||||||||||||  |||| ||||||||||||||||||||||||||||||||||||||||   ||| |  |    ||  | ||||||  |    ||    ||  |  |||    | |||     ||| | |  ||||  |   |||    |        
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacatctgttcattttcagcttggatgtgctccttgttcaaagtataatatggataataattgttggtctactttttttgctctttggctccttt---

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|17022161|gb|BM093195.1|BM093195
EST:     TGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAG                         CCGTGCAAAGGAATCCTATTATTTGGTCCCCCTGGAACTGGTAAAACAATG
genomic: TGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtttcatttc ... ttttgtgcagCCGTGCAAAGGAATCCTATTATTTGGTCCCCCTGGAACTGGTAAAACAATG
EST: gi|27425980|gb|CA937500.1|CA937500
EST:     TGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAG                         CCGTGCAAAGGAATCCTATTATTTGGTCCCCCTGGAACTGGTAAAACAATG
genomic: TGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtttcatttc ... ttttgtgcagCCGTGCAAAGGAATCCTATTATTTGGTCCCCCTGGAACTGGTAAAACAATG
EST: gi|192328312|gb|FK020023.1|FK020023
EST:     TGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAG                         CCGTGCAAAGGAATCCTATTATTTGGTCCCCCTGGAACTGGTAAAACAATG
genomic: TGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtttcatttc ... ttttgtgcagCCGTGCAAAGGAATCCTATTATTTGGTCCCCCTGGAACTGGTAAAACAATG
EST: gi|193435526|gb|FK401958.1|FK401958
EST:     TGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAG                         CCGTGCAAAGGAATCCTAATTATTTGGTCCCCCTGGAAC
genomic: TGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtttcatttc ... ttttgtgcagCCGTGCAAAGGAATCCTA-TTATTTGGTCCCCCTGGAAC
EST: gi|26048337|gb|CA784840.1|CA784840
EST:     AAGGGGCAATTAACCAAG                         CCGTGCAAAGGAATCCTATTATTTGGTCCCCCTGGAACTGGTAAAACAATG
genomic: AAGGGGCAATTAACCAAGgtttcatttc ... ttttgtgcagCCGTGCAAAGGAATCCTATTATTTGGTCCCCCTGGAACTGGTAAAACAATG