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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcattttatttgtgtataatttggaacttgtttcttcttgctttatgtacttaaaagagtttttcattatatggtaatgcttgatatctttcctaaacatttgacattaccttgtgtcccttcttgttggactaccag

Basic information

species Glycine max
transcript GLYMA20G35770.1
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os01g01800.2 (Oryza sativa), 5'ss of exon 13
GGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcatttt---atttgtgt------ataatttgga-acttgtttcttcttgctttatgt-acttaaaagagtttttca-ttatatggtaatgcttgatatctttcctaaacatttgacattaccttgtgtcccttcttgttggactaccag
 |  |||||||| |||| |||  |||| ||||| ||||||||||| ||||| |||||| | || ||||||| |||||| || || |||||||||||||||||||  ||    |||  |||      | | | |||| |   |    |   | | |||| |   | | | ||||||   | ||  |||| ||| ||      || ||| ||| ||   | |||  | | ||| |                   
AGGCATAGAGGGCCTTCGAATCACAGGTGAAGCTTTTCCTGGAAGAGAACTCCAAGCAAGCGGGTACTCCACCAATGGAACCACCAGTTGTAATTTTGAGgtgctcttcgtaattcatgtcattccacattctggataaaagaacttctctaccttatattgttcatatgagtttcaaactttcatggcaat-ctca----ctgtccaaaaaat---atattttcctatgtgcag-----------------

upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os05g01060.1 (Oryza sativa), 5'ss of exon 13
GGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcattttatttgtgtataatttggaacttgtttcttcttgctttatgtacttaaaagagtttttcattatatggtaatgcttgatatctttcctaaacatttgacattaccttgtgtcccttcttgttggactaccag
 || ||||| || || | |||  |||| ||||| ||||||||||| || ||||||||| |||| ||||| |||||||| || || ||||||||||||||||||   || ||               ||||  | || || | |   || |||  |  | | || ||||  || | | |    |||||  |||  || |  |    |  || | || ||    ||||| |||  |   |||
AGCCATAGAAGGGCTACGAATCACAGGTGAAGCTTTTCCTGGAAGAGAGCTTCAAGCAAGTGGCTACTCTATCAATGGGACCACAAGTTGTAATTTTGAGgtgtgcttcat---------------aactgttctcctcattcca-atatacc-atcaaatttgttcaccattttgaa---tttgat--cttagctcactac--aatgttccattttgcaatttctttttgtgcatacag

upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 15
lower sequence: GRMZM2G104377_T03 (Zea mays), 5'ss of exon 12
GGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcattttatttgtgtataatttggaacttgtttcttcttgctttatgtacttaaaagagtttttcattatatggtaatgcttgatatctttcctaaacatttgacattaccttgtgtcccttcttgttggactaccag
 || ||||| || || | |||  |||| ||||||||||||||||| |||||||||||| |||| ||||| ||| |||| || || |||||||||||||||||||  | ||||                |||  || | | ||  |||  || | ||   | ||   |||| | |  | |||  | || ||  |  |     ||   |||||   | |||   || || |||  ||  |||
AGCCATAGAAGGACTGCGAATCACAGGTGAAGCCTTTCCTGGAAGAGAACTTCAAGCAAGTGGGTACTCTATCCATGGAACCACAAGTTGTAATTTTGAGgtgcgctctatt--------------gcctttgttatccatgtcttagatattcaactaaatt---catt-tgtactcatgaataatttcagttttgtgtttt---cattataatctgtgttttgtttttgtgctcacag

upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 15
lower sequence: GRMZM2G036206_T01 (Zea mays), 5'ss of exon 13
GGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcattttatttgtgtataatttggaacttgtttcttcttgctttatgtacttaaaagagtttttcattatatggtaatgcttgatatctttcctaaacatttgacattaccttgtgtccctt---cttgttggactaccag
 |  ||||| || |||| |||  |||| ||| | |||||||||   |||||||||||| ||||||||||||||||||| || || | ||||||||||||||||  ||| | ||               |||||   |||   ||  | |||   ||| || ||||  |    ||         |  |   || |  |||| ||  | ||    |    ||           |||  |   |||
AGGCATAGAAGGGCTTCGAATCACAGGTGAACCTTTTCCTGGACAAGAACTTCAAGCAGGTGGATACTCCATCAATGGTACCACAACTTGTAATTTTGAGgtgtgtttgactt---------------cttgtcaattcacactccaagtagcgaaatgatttttcaaactcatcactcaaaattgtgagttgc--aaactttcaatatggtttcacttcttgcaaatgatttgtgcctgcag

upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 15
lower sequence: AT5G23490.1 (Arabidopsis thaliana), 5'ss of exon 13
GGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcattttatttgtgtataatttggaacttgtttcttcttgctttatgtacttaaaagagtttttcattatatggtaatgcttgatatctttcctaaacatttgacattaccttgtgtcccttcttgttggactaccag
 | ||||||||  || ||||||||||||||| | | |||||||   |||||||| || ||||| |||||||| ||||| || || ||||||||||||||||||| |  ||      || ||    |||    |  |||| |   ||||||   | ||     | |    ||| |  |  || |    |  ||||                                              
AGGTATAGAGGACCTCCAAATTTCAGGAGAACCTTATCCTGGACATGAACTTCAGGCTTGTGGTTACTCCATTAATGGAACAACAAGTTGTAATTTTGAGgtgcgtactaa----ataaaaaacagaa----tcgcttccttacttatgt---tgaattgcatctaatctatcttcttctgttcttcaattttcag--------------------------------------------

upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 15
lower sequence: AT5G23510.1 (Arabidopsis thaliana), 5'ss of exon 2
GGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcattttatttgtgtataatttggaacttgtttcttcttgctttatgtacttaaaagagtttttcattatatggtaatgcttgatatctttcctaaacatttgacattaccttgtgtcccttcttgttggactaccag
 ||| |||||   || ||||||||||||||| | | |||||||   |||||||| || ||||| |||||||| ||||| || || ||||||||||||||||||     || |     | |     |||    || |||  |   ||||||   | ||    | | || |  | || |  | | |  |                                                     
AGCTTTAGAGAACCTCCAAATTTCAGGAGAACCTTATCCTGGACATGAACTTCAGGCTTGTGGTTACTCCATTAATGGAACAACAAGTTGTAATTTTGAGgtgtg---tactaaaacagacaacagaatcgcttcctttcttacttatgt---tgaattgctctatcttcttctgttcttccattttcag--------------------------------------------------

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|17963067|gb|BM269820.1|BM269820
EST:     TTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAG                         TGGATTCGACATTTGGAAGATGGTTCCTTTAATTATATTGATG
genomic: TTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcatttta ... ggactaccagTGGATTCGACATTTGGAAGATGGTTCCTTTAATTATATTGATG
EST: gi|21888872|gb|BQ742085.1|BQ742085
EST:     TTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAG                         TGGATTCGACATTTGGAAGATGGTTCCTTTAATTATATTGATG
genomic: TTCAAGCATGTGGATACTCCATCAATGGCACTACTAGTTGTAATTTTGAGgtgcatttta ... ggactaccagTGGATTCGACATTTGGAAGATGGTTCCTTTAATTATATTGATG