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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggttgaatgatagtctcttcttgtgactataatgaagttcttacaaatttaattatttatggtgttaccattggattgaattcatattggcttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTGTTTTCTCCGACCCTTATAAAGTTTCTCAATATAATCGTTGGACTTCCCC

Basic information

species Glycine max
transcript GLYMA10G40730.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 2
ggttgaatgatagtctcttcttgtgactataatgaagttcttacaaatttaattat-ttatggtgttaccattggattgaattcatattggcttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTGTTTTCTCCGACCCTTATAAAGTTTCTCAATATAATCGTTGGACTTCCCC
                    |    ||  | |      | |||   | |     || |||| ||||| |  ||| | ||| |   | |||  ||  || |||  ||||||||||||| ||||||||||||||| |  | || ||||| ||||| || || ||||| |||| ||||||   || ||||||||||||||| ||
------------------gttcaaaaccctcacatctattttatttactagtcaatgttatcgtgttgc--ttgtagtgagtgtcttttgtgtttgtgtagTAACCGAATTTTGTGGTAATGTGGAGTTATGCCGATTAACGGAGCAAGTTGTGTTTTCGGACCCATATAGAGTTTCCACATTTAATCGTTGGACTTCACC

upper sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0091g00080.t01 (Vitis vinifera), 3'ss of exon 2
ggttgaatgatagtctcttcttgtgactataatgaagttc-ttacaaatttaattatttatggtgttaccattggattgaattcatattg-gcttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTGTTTTCTCCGACCCTTATAAAGTTTCTCAATATAATCGTTGGACTTCCCC
|  | | |  | ||    | |   ||  | | || ||||   | |  ||  | |||||  |  ||  |  |||| ||    |||| |||| ||||  ||||||||| ||||||||||| ||||||||||||||  ||||||||||||| ||||| ||||| || || || ||||| ||||| || ||||| |||||||| ||
gagtaattactggtagaatgt-acgagaaaattgcagtttgcttctgatgaagttattc-tattgacaagattgaatcatgttcaaattgtgctttatgcagTTGCTGAATTTTGTGGTAATGTGGAGTTATGTCGGCTCACTGAGCAAGTTGTGTTCTCTGATCCATACAAAGTATCTCAGTACAATCGGTGGACTTCTCC

upper sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 2
ggttgaatgatagtctcttcttgtgactataatgaagttc-ttacaaatttaattatttatggtgttaccattggattgaattcatattg-gcttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTGTTTTCTCCGACCCTTATAAAGTTTCTCAATATAATCGTTGGACTTCCCC
|  | | |  | ||    | ||  ||  | | || ||||   | |  ||  | |||||  |  ||  |   ||| ||    |||| |||| ||||  ||||||||| ||||||||||| ||||||||||||||  ||| ||||| ||| ||||||||||| || || || ||||| ||||| |||||| | |||||||||||
gagtaattactggtagaat-ttaagagaaaattgcagtttgcttctgatgaagttattc-tattgacaaacttgaatcatgttcaaattgtgctttatgcagTTGCTGAATTTTGTGGAAATGTGGAGTTATGTCGGCACACTGGGCAAGTTGTTTTCTCTGATCCATACAAAGTATCTCAGTATAATTGGTGGACTTCCCC

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|33388365|gb|CA851572.1|CA851572
EST:     CTTCTTCACGNCTGTGNTTTTCCGTTCCACATCTGACCACAAACGAGACG                         TTGCCGAATTTTGTGGGAATGNGGAGTTATGCAGGCTCACTGAGCAGGTTG
genomic: CTTCTTCACGTCTCTGCTTTTCCGTTCCACATCTGACCACAAACGAGACGgtataacctc ... cttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTG
EST: gi|192297825|gb|FG988323.1|FG988323
EST:     CTTCTTCACGTCTCTGCTTTTCCGTTCCACATCTGACCACAAACGAGACG                         TTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTG
genomic: CTTCTTCACGTCTCTGCTTTTCCGTTCCACATCTGACCACAAACGAGACGgtataacctc ... cttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTG
EST: gi|192295492|gb|FG987106.1|FG987106
EST:     CTTCTTCACGTCTCTGCTTTTCCGTTCCACATCTGACCACAAACGAGACG                         TTGCCGAATTTTGTGGGAATGTGGAGTTAT
genomic: CTTCTTCACGTCTCTGCTTTTCCGTTCCACATCTGACCACAAACGAGACGgtataacctc ... cttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTAT
EST: gi|209714541|gb|BW684890.1|BW684890
EST:     TTCTTCACGTCTCTGCTTTTTCCGT-CCACATCTGACCACAAACGAGACG                         TTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGT
genomic: TTCTTCACGTCTCTGCTTTT-CCGTTCCACATCTGACCACAAACGAGACGgtataacctc ... cttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttaattatttatggtgttaccattggattgaattcatattggcttcttgcagTTGCCGAATTTTGTGGGAATGTGGAGTTATGCAGGCTCACTGAGCAGGTTGTTTTCTCCGACCCTTATAAAGTTTCTCAATATAATCGTTGGACTTCCCC
 atttaat  putative branch site (score: 4)
                                             cttcttgc  putative PPT
                             attgaattcatatt  TA-rich tract