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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttagaatagtcatttacttgcaaatcagttatgccatactgtaaagtataatctgatacgaatacatactactcatgcagGGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATCTTGCACTCATTTGGAATTTGACATTTCAGGCACTGGAGTTAC

Basic information

species Glycine max
transcript GLYMA17G07050.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G07050.2 (Glycine max), 3'ss of exon 8
lower sequence: AT4G30210.1 (Arabidopsis thaliana), 3'ss of exon 8
gtacgttagaatagtcatttacttgcaaatcagttatg-ccatactgtaaagtataatctgatacgaatacatactactcatgcagGGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATCTTGCACTCATTTGGAATTTGACATTTCAGGCACTGGAGTTAC
||||   |    || |  ||  || |   |   ||||   | |    |      | |||| ||     |   |    ||  |  || |||||||| ||||| | || ||||||||||||||| |  |||||||| ||||| |  |||||||||||||||||| | || | |||| ||||
gtacaa-aatccagccgcttcttttctttttccttataatcttgtcttgttacttgatctaatcttgctttttttggcttttaaagAGCAAATGTCGCTGTTAAAAGGGAGCTTCATACTCCCGAGTCTGATCGTTCTTGTATCCATTTGGAATTTGACATTGCTGGAAGTGGACTTAC

upper sequence: GLYMA17G07050.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 8
gtacgttagaatagtcatttacttgcaaatcagttatgccatactgtaaagt----ataatctgatacgaatacatactactcatgcagGGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATCTTGCACTCATTTGGAATTTGACATTTCAGGCACTGGAGTTAC
     | | |  |  | ||  ||||||| | | || | | ||  | ||  ||     |||||| | | || |     ||   |||| || || |||||||||||||| |||||||||||||| |||||||| ||||| ||||| || ||| ||||||| ||||| || ||||||||| ||||
--gtatcaaagaaagctttgccttgcaacttaattct-caattttttattgtttctgtaatctaaaatgattggcatctctgcatgaagAGCTAATGTGGCTGTGAGGAAGGAGCTTCATACCCCTGCATCCGATCGTTCTTGTACGCATCTGGAATTCGACATATCTGGCACTGGACTTAC
















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|6134738|gb|AW133131.1|AW133131
EST:     TGGCATAATGTAAATGGTCACGCCATTGTGGATGCTCAACATCCAGTCAG                         GGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATC
genomic: TGGCATAATGTAAATGGTCACGCCATTGTGGATGCTCAACATCCAGTCAGgtacgttaga ... actcatgcagGGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATC
EST: gi|192316746|gb|FK006449.1|FK006449
EST:     TGGCATAATGTAAATGGTCACGCCATTGTGGATGCTCAACATCCAGTCAG                         GGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATC
genomic: TGGCATAATGTAAATGGTCACGCCATTGTGGATGCTCAACATCCAGTCAGgtacgttaga ... actcatgcagGGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATC
EST: gi|21887259|gb|BQ740472.1|BQ740472
EST:     TGGCATAATGTAAATGGTCACGCCATTGTGGATGCTCAACATCCAGTCAG                         GGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATC
genomic: TGGCATAATGTAAATGGTCACGCCATTGTGGATGCTCAACATCCAGTCAGgtacgttaga ... actcatgcagGGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagttatgccatactgtaaagtataatctgatacgaatacatactactcatgcagGGCAAATGTGGCTGTGAGAAAGGAGCTTCATACTCCTGCATCTGATCGATCTTGCACTCATTTGGAATTTGACATTTCAGGCACTGGAGTTAC
                         atctgat  putative branch site (score: 4)
                taaagtataat  TA-rich tract