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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcgtcgcgtggcgtactctttcaattccaaattagggctttatttttgtttattcgtttttttttttttataaattttttattttgattgaactttagGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG

Basic information

species Glycine max
transcript GLYMA20G01360.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------------------------------gtatcgtcgcgtggcgtactctttcaattccaaattagggctttatttttgtttattcgtttttttttttttataaattttttattttgattgaacttt---------------agGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG
                                                              | ||||     |   | | | |    ||   |||||  ||   || || | | |||    | ||  ||    | |||     ||  |||||| || |||               || ||||| |||   | ||||| |||||||| || || || || ||||| ||||||||||||||||| |||||||||||  |||| || || |
gtaccgtttacttgtccttctggttttgaattgggattggaattagggaatgtgttgatttggaatcggaagattaggca-tttaaggatatgaaattgaggaaatagttgt-tgtatggagtgttgattagagaaaaaaaccctaaattgattaaagtttcatttgtttttttgtagATTCAATTGGTAAGAATACAATTGAGAGTTCCAGAATATGGCTGGACGACGCAGAAGGTCTTTCATTTTCTCAATTTCATGGTTAACGGAG

upper sequence: GLYMA20G01360.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatcgtcgcgtggcgtactctttcaattccaaattagggctttatttttgtttattcgtttttttttttttataaattttttattttgattgaactttagGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG
                       |   || |   |  ||  || |||  || || |||| |    ||  | || | || || | ||| ||||    ||||| ||||||| |   | ||||| |||||||| || || || |||||||| ||||| |||||||||||||||||||||||  | || ||||| |
----------------------gtacgtttcgtttctggatttgattgatgattcttcgatgaaattggtgta-acatcttatgttt-gattttggtttagATTCAACTTGTGAGAATACAATTGAGAGTTCCTGAATATGGTTGGACGACGCAAAAGGTCTTTCACTTTCTCAATTTCGTTGTTAATGGAG
















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|22523518|gb|BU082329.1|BU082329
EST:     TGTCCTACACTCTCGCCGTACTCTACGGTATCGTGGCCACCGTAGCTTTG                         GTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACG
genomic: TGTCCTACACTCTCGCCGTACTCTACGGTATCGTGGCCACCGTAGCTTTGgtatcgtcgc ... tgaactttagGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACG
EST: gi|213601102|gb|DB956452.1|DB956452
EST:     TGTCCTACACTCTCGCCGTACTCTACGGTATCGTGGCCACCGTAGCTTTG                         GTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACG
genomic: TGTCCTACACTCTCGCCGTACTCTACGGTATCGTGGCCACCGTAGCTTTGgtatcgtcgc ... tgaactttagGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACG
EST: gi|9820925|gb|BE556435.1|BE556435
EST:     TGTCCTACACTCTCGCCGTACTCTACGGTATCGTGGCCACCGTAGCTTTG                         GTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACG
genomic: TGTCCTACACTCTCGCCGTACTCTACGGTATCGTGGCCACCGTAGCTTTGgtatcgtcgc ... tgaactttagGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtttattcgtttttttttttttataaattttttattttgattgaactttagGTTCAACTGGCTCGGATACATTTGAGAGTGCCGGAGTACGGTTGGACCACGCAGAAGGTCTTTCACTTTCTCAATTTTTTGGTGAATGGGG
                                      ttttgat  putative branch site (score: 4)
     tttattcgtttttttt  TA-rich tract