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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGCTTTGCTCTTTTTGAATCTGAGTCTCTGAAGTGGCCAGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttttactgttctgatatttttgcatggggatataattatgtaatatgtcaaggcttcttgatggtgatacttgtctttctttttaatcctgtag

Basic information

species Glycine max
transcript GLYMA04G40290.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G40290.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g40410.1 (Oryza sativa), 5'ss of exon 4
CTGGCTTTGCTCTTTTTGAATCTGAGTCTCTGAAGTGGCCAGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttttactgttctgatatttttgcatggggatataattatgtaatatgtcaaggcttcttgatggtgatacttgtctttctttttaatcctgtag
|||| ||  ||||||||||   ||||||  |||| ||||| || || || || ||||||||||| ||||||||||| ||||| || |||||||||||||||||     |  |||  | | ||  || |  | |    | || |     | | |    | ||   |  ||  ||  |   |                     
CTGGTTTCCCTCTTTTTGAGAGTGAGTCCTTGAAATGGCCTGGATTCGTGGAATTTGATGATGTCAATGGGAAGGTTTTAACTTATTCTGCTCAAGACAGgtacacacta-acttctgtaatgattataaa-gtatgtttattctgaaactgtactgatgccattgcattctgcaaacag---------------------

upper sequence: GLYMA04G40290.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g60200.1 (Oryza sativa), 5'ss of exon 4
CTGGCTTTGCTCTTTTTGAATCTGAGTCTCTGAAGTGGCCAGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttttactgttctgatatttttgcatggggatataattatgtaatatgtcaaggcttcttgatggtgatacttgtctttctttttaatcctgtag
|||| ||  ||||||| ||  | |||||  |||| |||||||||||||| || ||||||||||| || ||||||||  | || || ||||| ||||||||||||    | ||  | ||| || | |||| | || || |  ||||      |  |||     |    || |||| | |  | | || ||  || |      
CTGGTTTCCCTCTTTTCGAGACAGAGTCCTTGAAATGGCCAGGTTTTGTGGAATTTGATGATGTTAACGGGAAGGTGCTGACTTATTCTGCCCAAGACAGgtat----tcta--gctctaatttctttgaa-ggcgagaagatta------acctca-----ttcgaattgtgacattcctttctcattccaaccag----

upper sequence: GLYMA04G40290.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G138840_T01 (Zea mays), 5'ss of exon 4
CTGGCTTTGCTCTTTTTGAATCTGAGTCTCTGAAGTGGCCAGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatg-tgttttactg-ttctgatatttttgcatggggatataattatgt---aatatgtcaaggcttcttgatggtgatacttgtctttctttttaatcctgtag
|||| ||  |||||||||| || |||||  |||| ||||| || |||||||||||||||||||| ||||| ||||| || || |||||||||||||||||||||| ||  | ||||  | || || |     |  |  ||  |||  | |   ||||||    |    | |       | |                         
CTGGTTTCCCTCTTTTTGAGTCCGAGTCCTTGAAATGGCCTGGATTTGTAGAGTTTGATGATGTCAATGGAAAGGTTTTGACTTACTCTGCTCAAGACAGgtatgctgaatcactgactttggtaatggctaaaagaaattgaatcttctttgaatatgctctgatgccatctcatccacaaacag--------------------

upper sequence: GLYMA04G40290.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G145662_T01 (Zea mays), 5'ss of exon 4
CTGGCTTTGCTCTTTTTGAATCTGAGTCTCTGAAGTGGCCAGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttttactgttctgatatttttgcatggggatataattatgtaatatgtcaaggcttcttgatggtgatacttgtctttctttttaatcctgtag
|||| ||  |||||||||| || |||||  |||| ||||| || |||||||||||||| ||||| ||||| | ||| || || ||||||||||||||||||||||       |||   |||  ||         ||  ||   ||   ||||  |  |  |||||         | ||  |      || |   |    ||
CTGGTTTCCCTCTTTTTGAGTCCGAGTCCTTGAAATGGCCTGGATTTGTAGAGTTTGACGATGTCAATGGAAGGGTTTTGACTTACTCTGCTCAAGACAGgtatg-------ctgagttgacttt---------ggtaatggctaa--aataaattgaatcttctgtgaatctgttctgattccatcttatccacaaacag

upper sequence: GLYMA04G40290.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0067g00100.t01 (Vitis vinifera), 5'ss of exon 4
CTGGCTTTGCTCTTTTTGAATCTGAGTCTCTGAAGTGGCCAGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttttactgttctgatattttt--gcatggggatataattatgtaatatgtcaagg-cttcttgatggtgatacttgtctttctttttaatcctgtag
||||||||||||| |||||||||||||| || || ||||| |||||||||||||||||||||||||||||||||||| | || || ||||| ||||| |||||  | ||   || ||    | |||||  |||   || ||| | ||| |  | ||       |||||||||  ||||||||   ||| |||||   ||  |||
CTGGCTTTGCTCTCTTTGAATCTGAGTCACTTAAATGGCCTGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTACTCACTTATTCTGCACAAGATAGgtaaatattaagctatttctctgtttttatgcacttggctatgaatatttggtgtgcagttttcttcttgattctgatactttattttgttttt---ccattag

upper sequence: GLYMA04G40290.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S34_176V6.1 (Physcomitrella patens), 5'ss of exon 4
CTGGCTTTGCTCTTTTTGAATCTGAGTCTCTGAAGTGGCCAGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttttactgttctgatatttttgcatggggatataattatgtaatatgtcaaggcttcttgatggtgatacttgtctttc----tttttaatcctgtag--
|||| ||| || | || ||||| || || || | |||||| || ||||| |||||||||||||| |||||||||||  | |||||||||||||||||||||||| |    |  | ||||  || || |   | |   |  ||| ||||   || |      || |   | | ||||  ||   |      | ||| |   |||    
CTGGATTTCCTTTGTTCGAATCAGAATCGCTCAGGTGGCCCGGGTTTGTTGAGTTTGATGATGTTAATGGGAAGGTCCTTACATACTCTGCTCAAGACAGgtatttagcct--tattctcgtaattatttttagt--tgcaataatgttgcatctttg---ttttgagtagcgataactgctctcgcgggtgtttgaggttgtgagt

upper sequence: GLYMA04G40290.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S21_398V6.1 (Physcomitrella patens), 5'ss of exon 4
CTGGCTTTGCTCTTTTTGAATCTGAGTCTCTGAAGTGGCCAGGTTTTGTAGAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttttactgttctgatatttttgcatggggatataattatgtaatatgtcaaggcttcttgatggtgatacttgtctttctttttaatcctgtag-
| || ||| |||||||||| || || ||| |||  ||||| || || || |||||||||||||| |||||||||||  | ||||| ||||| ||||| ||||||  |  ||     | ||  |   ||   | |   |  || ||| |   || | ||       | ||   |    || | | |   ||       | || 
CAGGATTTTCTCTTTTTGAGTCAGAATCTTTGAGATGGCCCGGGTTCGTTGAGTTTGATGATGTCAATGGGAAGGTTCTCACATATTCTGCACAAGATAGgtatcagcgttgtacgtatggaacccttcagttgcagtg-aactattttcaatttgaacttcaaattataccg-cgtttctatgttccttctgctacgcagc

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|58018556|gb|CX705298.1|CX705298
EST:     GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
EST: gi|208121367|gb|GD919846.1|GD919846
EST:     GAGTTTGATGATGTAAGTGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGT
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGT
EST: gi|19269973|gb|BM886229.1|BM886229
EST:     GAGTTTGAGGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
EST: gi|208222388|gb|GE020826.1|GE020826
EST:     GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGTATTTGACCTAAAAA-CTAT-CAATGCTGTACTCTAT
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTAT
EST: gi|208056872|gb|GD851205.1|GD851205
EST:     GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGTATTTGACCTAAAAA-CTATACAATGCTGTACTCTATTTC
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
EST: gi|17024092|gb|BM095126.1|BM095126
EST:     GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
EST: gi|193410932|gb|FK378963.1|FK378963
EST:     GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
EST: gi|193463036|gb|FK427801.1|FK427801
EST:     GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC
EST: gi|120529430|gb|EH257564.1|EH257564
EST:     GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAG                         CATATACAAGGTATTTGACCTAAATAACTATACAATGCTGTACTCTATTTC
genomic: GAGTTTGATGATGTAAATGGGAAGGTATTAACATACTCTGCTCAAGACAGgtatgtgttt ... aatcctgtagCATATACAAGGTATTTGACCTAAAAAACTATACAATGCTGTACTCTATTTC