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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttaattgtagaaaatgttgttagcaatgattattttccattttctttattccaccacccctcacaattgtagtgtattactcattacctcatcactaaaacatgatgctatatcttaaccagGACTATTGCGTACACTAATCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATA

Basic information

species Glycine max
transcript GLYMA08G45210.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 7
--------------gtcagttaattgtagaaaatgttgttagcaatgattattttccatt-ttctttattccaccacccctcac---aattgtagtg-tattactcattacctcatcactaaaacatgatgctatatcttaaccagGACTATTGCGTACACTAATCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATA
              | ||  | |   || ||  || | |      | ||  |||||||   || ||||||   || |   |||    ||    |||  |   ||| |  | ||   |   |  |    ||  | |   |   |||| || ||||| ||||| ||||| ||||| || |||||||| || ||||||||||| ||   ||||||| ||||| |||||||||| || |||||||| || 
gtgagctctaatatgacaagtgacaatataatttgatctcttttcttatctttttccaccattgtttatttttccgcttttcattttaacaagagtaattcaacttaaaagcttgacctaatcaataaattatttgaatggtccagAACAATTGCCTACACCAATCACACTGTTCTTCCTGAAGCCCTTGAGAAATGGTCGCAGATTGTAATGAGGAAATTACTTCCACGACACATGGAAATTATC

upper sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 8
gtcagttaattgtagaaaatgttgttagcaatgattattttccattttctttattccaccacccctcacaattgt--agtgtattactcattacctcatcactaaaacatgatgctatatcttaaccagGACTATTGCGTACACTAATCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATA
                                           |   | ||||| |    |||  |||  |||    |    | |  |||  || |      |   || |  |  |||   |||  ||||||  |||| ||||| ||||| |||||||| ||||||||  ||||||||||||| ||| || | |||||||| || ||||| || ||||||||||| |||
-----------------------------------------gtaaaatatttatgcatgaacctttcaatatttcccaacaaagttttcac-acttttctgttgggacttatttatatggttta--cagGACCGTTGCTTACACCAATCACACTGTCCTTCCTGAAGCGTTGGAGAAATGGTCACAATCTTTGATGTGGAAGCTTCTTCCTCGTCATATGGAAATAATA

upper sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 7
gtcagttaattgtagaaaatgttgttagcaatgattattttccattttctttattccaccacccctcacaattgtagtgtattactcattacctcatcactaaaacatgatgctatatcttaaccagGACTATTGCGTACACTAATCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATA
    ||| | | |      | ||||| |  |  |   |    |||    |||    ||  |||         |||    |  |  |  |||  | |  || |    |||     |    | || ||| || ||||| || || ||||| |||||||| ||||||||||| ||||||||||| |||  |||||||||||| || ||||||||||||||||||||||||
----gttcactatg---ttttttgtttgatagaacactcgctcatgggttttccagcatgaccttctttgtctgt----tgctttttcttatgttaatacaactttatggcaaaaatattgaatcagAACAATTGCCTATACAAATCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATA

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|23731258|gb|BU763741.1|BU763741
EST:     ATGGATGATGAAGGGCTTGGATGGGATGAAGCATGGGATGTGACATCAAA                         GACTATTGCGTACACTAATCATACTGTCCTCCCTGAAGCACTGGAGAAATG
genomic: ATGGATGATGAAGGGCTTGGATGGGATGAAGCATGGGATGTGACATCAAAgtcagttaat ... tcttaaccagGACTATTGCGTACACTAATCATACTGTCCTCCCTGAAGCACTGGAGAAATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtagtgtattactcattacctcatcactaaaacatgatgctatatcttaaccagGACTATTGCGTACACTAATCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATA
                         cactaaa  putative branch site (score: 2)
                                         tatatcttaa  TA-rich tract