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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtactacaattccccttctctcccgtctcttttatttagggtttcttaatcattttctctaaactaaatggaagaatactgttgtattttacagTTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTGATATTTCTTCAATTGCAATTGACATGATGAGTAGAAAATATGAGCACAT

Basic information

species Glycine max
transcript GLYMA09G36070.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G36070.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G60910.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------gttggtactacaattcccct--tctctcccgtctcttttatttagggtttct--taatcattttctctaaacta-aatggaagaatactgttgtattttacagTTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTGATATTTCTTCAATTGCAATTGACATGATGAGTAGAAAATATGAGCACAT
                |||  | || | ||       ||| | ||     ||  ||||    |       || ||  ||   || |||   || |     | ||  | | |  |  ||| ||||||||||||||||| || ||||| || ||||||||| | ||| ||||||| |||||| | || ||||| ||||||   |  |||||||      |
gtaattctctctccttttgccaatagatttgaagaagtctgtaccagtgattgaatttgacttgagcagcaaccaaatttaatacactgtgattgccctgttcttctctttggtgtagTGATGTCAGAGGATATGGTGAAGGATGGGTATGAGGACATCATGAATGTTGATATCTCTTCAGTGGCTATTGAGATGATGCAAACCAAATATGCATCTGT

upper sequence: GLYMA09G36070.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0158g00120.t01 (Vitis vinifera), 3'ss of exon 1
gttggtactacaattccccttctctcccgt-ctctttta--tttagggtttcttaatcattttctctaaactaaatggaagaatactgttgtattttacagTTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTGATATTTCTTCAATTGCAATTGACATGATGAGTAGAAAATATGAGCACAT
 |    | | ||       | || |    | ||  |  |   ||     ||  |||  |   |    ||  |   |       |  | ||  | |||| ||||||||||||||| |||||||| ||||| || || || ||  | || ||||| ||||| ||| |||| ||||| |||||||| || ||| ||||||||||
-tgacaattgcagcattattgctgtaagatacttctacagcctttctacttgctaacaaagcttctgaaggttttttttttttttgtctttaactttatagTTATGTCAGAGGACATGGTCAAGGATGGGTATGAAGAAATAATGAACATTGACATTTCATCAGTTGCCATTGAGATGATGAGAAGGAAACATGAGCACAT
















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|9564549|gb|BE474058.1|BE474058
EST:     TTTCATCCCTCTTTCTTCCAGGATTCTCATGGTTGGTTGCGGCAATTCTG                         TTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTG
genomic: TTTCATCCCTCTTTCTTCCAGGATTCTCATGGTTGGTTGCGGCAATTCTGgttggtacta ... tattttacagTTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTG
EST: gi|192330142|gb|FK019782.1|FK019782
EST:     TTTCATCCCTCTTTCTTCCAGGATTCTCATGGTTGGTTGCGGCAATTCTG                         TTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTG
genomic: TTTCATCCCTCTTTCTTCCAGGATTCTCATGGTTGGTTGCGGCAATTCTGgttggtacta ... tattttacagTTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttcttaatcattttctctaaactaaatggaagaatactgttgtattttacagTTATGTCAGAGGATATGGTCAAAGATGGTTACGAGGACATCGTCAATATTGATATTTCTTCAATTGCAATTGACATGATGAGTAGAAAATATGAGCACAT
                      aactaaa  putative branch site (score: 2)
      ttaatcatttt  TA-rich tract