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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgttttatatactttgctgcatttgtttttgctattacattaacacaaactatttagcaaattctctgtcagtacaatctcattggtcataatacattttcaca

Basic information

species Glycine max
transcript GLYMA18G39880.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G39880.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g16690.1 (Oryza sativa), 5'ss of exon 3
GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgttttatatactttgctgcatttgtttttgctattacattaacacaaactatttagcaaattctctgtcagtacaat---ctcattggtcataatacattttcaca
 ||| |||||||| |||||  | ||  | ||| | |||||| | |||||||||||||| ||||||||||||||||||||||| |||||||||||||| ||||| |||  | |  |  |  |   ||||      ||  |  | |     |   ||  | | |   | |  || ||| |   |    ||||| |   ||    | | |    
-GAAGATGATGCACAAGTACATAGGGGCAGATGTTACATCACTTGTGACACTTCCGGTCATCATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCAGAGgtttgtactgttaaactcac---atttagagc-gcagtagcctgtgttcgt-cttctcatcctgtgcattggcagaatgttacgttcatttgct-tagcgtagtat----

upper sequence: GLYMA18G39880.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G114126_T01 (Zea mays), 5'ss of exon 3
GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgttttatatactttgctgcatttgtttttgctattacattaac-acaaactatttagcaaattctctgtca--gtacaatctcattggtcataatacattttcaca
 ||| |||||||| |||||  | || || ||| | |||||| | ||||||||||| || || |||||||||||||||||||| |||||||||||||||||||| |||  ||| | |     |  | || ||     |  |||| |  | |   || | | |   |  | ||||  |  ||   |||    | ||| | | | |        
-GAAGATGATGCACAAGTACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCTGAGgtttgtactatgttccgaattagacttcttgagatt--tacactggccatctacaactgaaggatgtgtctgcaattgtttgatccttgtcgtctttaaaaa--------

upper sequence: GLYMA18G39880.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G174644_T01 (Zea mays), 5'ss of exon 3
GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgt--tttatatactttgctgcatttgtttttgctattacattaacacaaactatttag---caaattctctgtcagtacaatctcattggtcataatacattttcaca
 ||| |||||||| || ||  | || || ||| | |||||| | ||||||||||| || || |||||||||||||||||||| |||||||||||||| ||||| |||  ||| |||  | | ||| ||| |  ||     | | ||| ||||   | || ||      ||   | ||||  | ||||    |   ||   |    |       
-GAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGCTTCAGAAAATGGCCGAGgtttgtactttgtattatgttctgaattagacttct---tgagatttacactgcccatctacaactgaaggatgtgtc--tgcaattgtttgattctcgacggct-------

upper sequence: GLYMA18G39880.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0007g00480.t01 (Vitis vinifera), 5'ss of exon 3
GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgttttatatactttgctgcatttgtttttgctattacattaacacaaactatttagcaaattctctgtcagtacaatctcattggtcataatacattt-tcaca-
 ||| |||||||| |||||| | ||||||||| |||||||||||||||||||||| ||||| |||||||||||  |||| ||||| |||| |||||| ||||| | ||| || |  | || |  |  ||| || ||  | |  |||       ||  | |    | | || |    |  ||| | | |     ||  | |  | | ||| 
-GAAGATGATGCACAAGTATATAGGCTCTGATGTCACATCAATGGTGACACTTCCTGTTATGATTTTTGAGCCGTTGACTATACTGCAGAGAATGGCAGAGgttt-tttcat-ttttgtgtttaaactgtatt-gcagtaatgttag----ggctgctcaaggcagt-tcagctgattgaatgttactaactgtatgatacctgttacag

upper sequence: GLYMA18G39880.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S148_87V6.1 (Physcomitrella patens), 5'ss of exon 3
GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgttttatatactttgctgcatttgtttttgctattacattaacacaaactatttagcaaattctctgtcagtacaatctcattggtcataatacattttcaca
 |||||||||||| |||||  | || ||||| || || ||||||||||||||||| || ||||| |||||||| ||||| |  |||||||| ||||||||||| | ||||   ||||||  |   |  ||    || |     ||  |   ||   || || | |   |   ||  | | |||      ||   ||    | |  || 
-GAAAATGATGCACAAGTACATAGGTTCTGACATTACTTCAATGGTGACACTTCCAGTCATCATATTTGAGCCCATGACTACGCTTCAGAAGATGGCTGAGgtatttttt---tacttt-ttttgtgcgtggccgcaaaatatttggctttaatctttgagtacaaaatgattc--tgctatccgtgatgttgcaaattctgtatac-

upper sequence: GLYMA18G39880.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ19778 (Selaginella moellendorffii), 5'ss of exon 3
GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgttttatatactttgctgcatttgtttttgctattacattaacacaaactatttagcaaattctctgtcagtacaatctcattggtcataatacattttcaca
 |||||||||||| |||||| |||| || ||  |||| || ||||||||||| || ||| | ||||||||||| ||||| || || || | |||||| |||||       |  |  ||   ||         |    |||  ||  |||                                                           
-GAAAATGATGCACAAGTATATTGGATCGGACGTCACTTCCATGGTGACACTGCCAGTTTTGATTTTTGAGCCCATGACGATGCTCCAAAGAATGGCCGAGgtaaagaaaaactttttccttgaggcaaagctgtaaattctatctacag----------------------------------------------------------

upper sequence: GLYMA18G39880.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ08612 (Selaginella moellendorffii), 5'ss of exon 3
GGAAAATGATGCAAAAGTATGTTGGCTCTGATATCACATCAATGGTGACACTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgttttatatactttgctgcatttgtttttgctattacattaacacaaactatttagcaaattctctgtcagtacaatctcattggtcataatacattttcaca
 |||||||||||| |||||| |||| || ||  |||| || ||||||||||| || ||| | ||||||||||| ||||| || || || | |||||| |||||       | | |||||      ||  ||  ||| |     | ||  | | |||                                                    
-GAAAATGATGCACAAGTATATTGGATCGGACGTCACTTCCATGGTGACACTGCCAGTTTTGATTTTTGAGCCCATGACGATGCTCCAAAGAATGGCCGAGgtaaag---aaaaacttt------ttccttgatgcaaagctgtaaattctatctacag-------------------------------------------------

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|209715741|gb|BW674377.1|BW674377
EST:     CTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGA                         GCTTATGGAGTACTCTTACCTGTTAG
genomic: CTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgtttt ... cattttcacaGCTTATGGAGTACTCTTACCTGTTAG
EST: gi|254320166|gb|GR829354.1|GR829354
EST:     CTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGA                         GCTTATGGAGTACTCTTACCTGTTAGATATGGCAGATAAGACTGAGGATCC
genomic: CTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgtttt ... cattttcacaGCTTATGGAGTACTCTTACCTGTTAGATATGGCAGATAAGACTGAGGATCC
EST: gi|254346587|gb|GR856309.1|GR856309
EST:     CTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGA                         GCTTATGGAGTACTCTTACCTGTTAGATATGGCAGATAAGACTGAGGATCC
genomic: CTTCCGGTTATCATTTTTGAGCCAATGACAATACTTCAGAAAATGGCTGAggtctgtttt ... cattttcacaGCTTATGGAGTACTCTTACCTGTTAGATATGGCAGATAAGACTGAGGATCC