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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTTTTACATTTGATAAAGTTTTTACACCAGAGGCATCACAAGAAGAAGTTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaaagttcttctgtcatctctaaagcactattcatttaaaatcgtatatacatatggatcaaccatttaatgcactattactagtcaattttg...

Basic information

species Glycine max
transcript GLYMA12G16580.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G16580.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os04g53760.2 (Oryza sativa), 5'ss of exon 11
TTCTTTTACATTTGATAAAGTTTTTACACCAGAGGCATCACAAGAAGAAGTTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaaagttcttctgtcatctctaaagcactattcatttaaaatcgtatatacatatggatcaaccatttaatgcactattactagtcaattttg------
||| ||  ||| ||| ||||||||    |  |  || ||||||||||| || ||| | ||||| ||||| || || |||||||| |||||||| |||||||||   | ||  ||   ||  || |  | ||| | |  | | |  ||   ||  ||     |       | | | | |  | |||    | |  |||||       
TTCCTTCTCATATGACAAAGTTTTCGATCACGGTGCTTCACAAGAAGATGTGTTTGTGGAAATGTCACAACTAGTTCAAAGTGCACTTGATGGGTACAAGgta---tgaatatttcacta-caacaatgaagtattggtgaat--aatctgttcatgaggttcctgtctctaataactcaaatatcctaactttattttttttatt

upper sequence: GLYMA12G16580.1 (Glycine max), 5'ss of exon 11
lower sequence: AT4G27180.1 (Arabidopsis thaliana), 5'ss of exon 11
TTCTTTTACATTTGATAAAGTTTTTACACCAGAGGCATCACAAGAAGAAGTTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaaagttcttctgtcatctctaaagcactattcatttaaaatcgtatatacatatggatcaaccatttaa--tgcactattactagtcaattttg--------------------------------------------------------------------------------------
|| ||| ||||||||||| ||||||   |||   |||||||||||||| |||||| |||| ||||| || ||||| || || ||||||||||||||||||||| | ||    | |||  |     | |||  | || || | |||       ||      ||   ||||   || |   || | | |    |  |  | |                                                                                        
TTGTTTCACATTTGATAAGGTTTTTGTGCCAAGTGCATCACAAGAAGATGTTTTTGTAGAGATTTCTCAACTTGTCCAGAGCGCTCTTGATGGTTACAAGgtactatc----tgctttagcttagtttaactccctgtttacttatgtcttcattattcgattcctcaaattttcagagtgtattttggtaaaactgtctaactggtcaataaaagcacatgaatgatgaataatgttatgtttcactgtaccttcttggactaaaggttctattacacaattttcag

upper sequence: GLYMA12G16580.1 (Glycine max), 5'ss of exon 11
lower sequence: AT5G54670.1 (Arabidopsis thaliana), 5'ss of exon 11
TTCTTTTACATTTGATAAAGTTTTTACACCAGAGGCATCACAAGAAGAAGTTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaaagttcttctgtcatctctaaagcactattcatttaaaatcgtatatacatatggatcaaccatttaatgcactattactagtcaattttg
| |||| ||||||||||| |||||| | ||    |||||||||||||| || ||    || ||||| || ||||| ||||||||||| |||||||||||||||| |    |  ||| |      |   |||| |||||     |   |  || | |    ||   | | |   |  |  |  | ||| |||         
TGCTTTCACATTTGATAAGGTTTTTGCGCCGACTGCATCACAAGAAGATGTCTTCACTGAGATTTCTCAACTTGTTCAAAGTGCTCTCGATGGTTACAAGgtaact----aaatctgcaaatggcaa-aaagtactatgtgcgtttcactgtttgttggaataactaagctgatagaatccatttta-tag---------

upper sequence: GLYMA12G16580.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv19s0014g05070.t01 (Vitis vinifera), 5'ss of exon 10
TTCTTTTACATTTGATAAAGTTTTTACACCAGAGGCATCACAAGAAGAAGTTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaaagttcttctgtcatctctaaagcactattcatttaaa---atcgtatatacatatggatcaaccatttaatgcactattactagtcaattttg
||| || || || || ||||| ||||  || || ||| | ||| | ||||| ||| ||||||| |||||||||||||| |||||||| |||||||| |||||||| | | | |   || |   ||  |   |  | ||| |  || |    |  | | |  ||||| |    ||     |    || |  ||  | ||||   
TTCGTTCACCTTCGACAAAGTGTTTATGCCTGATGCACCGCAACAGGAAGTCTTTGTAGAAATCTCACAGCTTGTACAGAGTGCTCTGGATGGTTATAAGgtaatct-acattggctccgatttcagtcctgtcccatttacatagatgtgttctgtgtggatatgcaatttcctgaacacattctgtatctgcttaattg--

upper sequence: GLYMA12G16580.1 (Glycine max), 5'ss of exon 11
lower sequence: EFJ35821 (Selaginella moellendorffii), 5'ss of exon 10
TTCTTTTACATTTGATAAAGTTTTTACACCAGAGGCATCACAAGAAGAAGTTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaaagttcttctgtcatctctaaagcactattcatttaaaatcgtatatacatatggatcaaccatttaatgcactattactagtcaattttg
 |  ||| | || || ||||| |||   || ||  |    |||||    || |||  |||||| || || ||||| ||||||||||| ||||| ||||||||||||   ||   | | | |  |||    |   | | |||| | |   ||     |||  | |  ||                                
CTTCTTTTCTTTCGACAAAGTGTTTGGTCCTGAAACTGGCCAAGAGAGCGTGTTTACAGAAATATCTCAACTTGTGCAAAGTGCTCTGGATGGATACAAGgtaattaagaaaagcgtatcttttct----actgccactcatatgatgacgctgtaacacttcg--cag-------------------------------

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|298199412|gb|HO042775.1|HO042775
EST:     TTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAG                         GTTTGCATCTTTGCCTATGGTCAGACAGGGTCAGGGAAAACCTATACAATG
genomic: TTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaa ... tcttttccagGTTTGCATCTTTGCCTATGGTCAGACAGGGTCAGGGAAAACCTATACAATG
EST: gi|24136538|gb|BU927048.1|BU927048
EST:     TTTTTGTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAG                         GTTTGCATCTTTGCCTATGGTCAGACAGGGT
genomic: TTTTTCTAGAAATTTCACAGCTTGTACAAAGTGCTCTTGATGGTTACAAGgtaatttcaa ... tcttttccagGTTTGCATCTTTGCCTATGGTCAGACAGGGT