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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagatgggtcaagttcagtttgctttagattttttttgcacatccttgttcaatgatcagctaaagtagttgctcactttttggtttgtcatgtgtgcagGCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTTTAGTTCAAGATTGGGACTTGATGGGTCCTCGTAAGTGACATAATTAGTA

Basic information

species Glycine max
transcript GLYMA13G43990.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43990.2 (Glycine max), 3'ss of exon 9
lower sequence: AT3G15650.2 (Arabidopsis thaliana), 3'ss of exon 8
tagatgggtcaagttcagtttgctttagattttttttgcacatccttgttcaatgatc-agctaaagtagttgctcactttttggttt-gtcatg--tgtgcagGCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTTTAGTTCAAGATTGGGACTTGATGGGTCCTCGTAAGTGACATAATTAGTA
                 ||     ||  |  | | |  || |    |  | |   ||| || |    ||||     | | |  |||||     ||  |||| ||||||||||| || |||||||||| ||| |||||||||||       ||| |    |||||  | || || || || ||    |||     | ||  |   
-----------------gtaactgttcaacctatatcccaaagttatcattatcaatctagttgttttagtctgagattgtgaggttttaatgtgattgtgtagGCTTGGTCACTATACGGTTCCTAAAGAAATGGATGAGGTGGTTCACTGGCTCGTCTCAAGGCTTGGTCTCGAGGGTTCGCGTTAAACTTTACAAGCATCT

upper sequence: GLYMA13G43990.2 (Glycine max), 3'ss of exon 9
lower sequence: AT1G52700.1 (Arabidopsis thaliana), 3'ss of exon 8
tagatgggtcaagttcagtttgctttagattttttttgcaca-tccttgttcaatgatcagctaaagtagttgctcactttttggtttgt-catgtgtgcagGCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTTTAGTTCAAGATTGGGACTTGATGGGTCCTCGTAAGTGACATAATTAGTA
    |     || |||| |   |   | | |  |||     | |  |  ||   ||   | |  |  ||  |    | |||| ||||| | |    |||||| ||||||||||| || ||||| ||||| |||||||||||       ||| | |   | |   | |||||||| || ||    |||     | |    |  
---gtaataaaacttcaatgaacgcgaaaataatttgatttaattatcatttgttgg--aacatactta--taaagagttttgggtttatgccaacgtgcagACTTGGTCATTATACCGTTCCCAGAGAAATGGATGAGGTCGTTCACTGGCTCACAACGATGCTCGGACTTGAGGGCTCGCGCTAAACTTTACAGACTGCG

upper sequence: GLYMA13G43990.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 9
-tagatgggtcaagttcagtttgctttagattttttttgcac--atccttgttcaatgatcagctaaagtagttgctcactttttggtttgtcatgtgtgcagGCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTTTAGTTCAAGATTGGGACTTGATGGGTCCTCGTAAGTGACATAATTAGTA
 ||  |   | |  | |    |     |||| |   ||||    ||  ||| | |||    || | ||||  || || | | ||||||||| |    |||||| ||||||||||| || ||||| | ||||||||||||||| ||||||||| | | | ||||  |||| ||||| |||| |   | |    || |||||  |
gtatctaattgacttcctccattggcaagatctaacttgctttgatgattggtaaattga-agatgaagtgttttctaaatgtttggtttgac---cgtgcagACTTGGTCATTATACAGTTCCCAAAGAGATGGATGAGGTCTGCACTTGGCTAACTGCAAGGCTGGGGCTTGAGGGGTGCCACTCATAATCACAATTATGA

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|192301510|gb|FG994106.1|FG994106
EST:     TCCTTATGTTCAGCAGGGTTTCGATGTGTTGCATTCAAATCCTATGATGG                         GCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTT
genomic: TCCTTATGTTCAGCAGGGTTTCGATATGTTGCATTCAAATCCTATGATGGgtaacatttt ... atgtgtgcagGCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTT
EST: gi|192301509|gb|FG994105.1|FG994105
EST:     TCCTTATGTTCAGCAGGGTTTCGATGTGTTGCATTCAAATCCTATGATGG                         GCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTT
genomic: TCCTTATGTTCAGCAGGGTTTCGATATGTTGCATTCAAATCCTATGATGGgtaacatttt ... atgtgtgcagGCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttcaatgatcagctaaagtagttgctcactttttggtttgtcatgtgtgcagGCTTGGTCATTACACGGTTCCTAGAGAGATGGATGAGGTTTGCACTTGGTTTAGTTCAAGATTGGGACTTGATGGGTCCTCGTAAGTGACATAATTAGTA
                         tgctcac  putative branch site (score: 2)
                taaagta  TA-rich tract