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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtacttgctgccctaaatttagtgattgttgtagtattcggtgaatggcaaacacaaatcagatagagctacttctgttagtggattaatgctgaggaattgaatttgattcacattcctgcagttgttattagtcatgctattagccattctagaaatatgttggcttttctacatttcttcttctgattatgttgcaGATATTGATGAGTGCAAAGAGAAAACAGCCTGTCAATGCCCAGGTTGCAAATGCAAAAACACCTGGGGAAGTTACGAGTGCAAATGCAAAAGTGGTTTGT

Basic information

species Glycine max
transcript GLYMA18G44580.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G44580.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G30290.2 (Arabidopsis thaliana), 3'ss of exon 10
ggtacttgctgccctaaatttagtgattgttgtagtattcggtgaatggcaaacacaaatcagatagagctacttctgttagtggattaatgctgaggaattgaatttgattcacattcctgcagttgttattagtcatgctattagccattctagaaatatgttggcttttctacatttcttcttctgat-tatgt---tgcaGATATTGATGAGTGCAAAGAGAAAACAGCCTGTCAATGCCCAGGTTGCAAATGCAAAAACACCTGGGGAAGTTACGAGTGCAAATGCAAAAGTGGTTTGT-
                                                                                                                                 |||||||  ||  || | | ||   | | |||| | |   ||   |      || || |||| ||  |   ||||||| |  |||||||  | ||||||||||| || ||||| |  | |||||||||||||||||| |||||||| || || || |  ||||   |  | |||  
--------------------------------------------------------------------------------------------------------------------------------gtattagt--tggaataaactataaaacatatatatggagcttcaaaatcaaatttttttgatgtacataaatgcagATGTGAATGAGTGTGAGGAGAAAACAGCGTGCCAATGTCGCGATTGCAAATGCAAAAACACATGGGGAAGCTATGAATGTAGTTGCAGCGGAAGCTTGCT

upper sequence: GLYMA18G44580.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv08s0058g01360.t01 (Vitis vinifera), 3'ss of exon 9
ggtacttgctgccctaaatttagtgattgttgtagtattcggtgaatggcaaacacaaatcagatagagctacttctgttagtggattaatgctgaggaattgaatttgattcacattcctgcagttgttattagtcatgctattagccattctagaaatatgttggcttttctacatttcttcttctgattatgttgcaGATATTGATGAGTGCAAAGAGAAAACAGCCTGTCAATGCCCAGGTTGCAAATGCAAAAACACCTGGGGAAGTTACGAGTGCAAATGCAAAAGTGGTTTGT-
                                                                                                     |  ||    ||  |||  || || |  | |  | |  | || ||  |  |  ||   | |  | |  || | | ||||     |  | | | | ||  |||| |  | || ||||| || ||    |||||  | || ||||  ||||||||||| || |||||||||||||| |||||||  ||||   |   ||| | 
--------------------------------------------------------------------------------------------------cgctagatgcatttttcatctcttcattcataaccaattctcct-ttgacattcatactgacagatgg--ttctatgcattatcaatgtttactgttttatagATGTGAACGAATGCAAGGACAAGGTTGCCTGCAATTGTCCAGAGTGCAAATGCAAGAATACCTGGGGAAGTTATGAGTGCAGCTGCAGTGGCAATTTATT
















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|20497891|gb|BQ272821.1|BQ272821
EST:     GTTGTACATGTCCACCTGGGTTCAGAGGAGATGGAGTTCAGTCATGTGAA                         GATATTGATGAGTGCAAAGAGAAAACAGCCTGTCAATGCCCAGGTTGCAAA
genomic: GTTGTACATGTCCACCTGGGTTCAGAGGAGATGGAGTTCAGTCATGTGAAggtacttgct ... ttatgttgcaGATATTGATGAGTGCAAAGAGAAAACAGCCTGTCAATGCCCAGGTTGCAAA
EST: gi|13478328|gb|BG507848.1|BG507848
EST:     GTTGTACATGTCCACCTGGGTTCAGAGGAGATGGAGTTCAGTCATGTGAA                         GATATTGATGAGTGCAAAGAGAAAACAGCCTGTCAATGCCCAAGGT-GCAA
genomic: GTTGTACATGTCCACCTGGGTTCAGAGGAGATGGAGTTCAGTCATGTGAAggtacttgct ... ttatgttgcaGATATTGATGAGTGCAAAGAGAAAACAGCCTGTCAATGCCCA-GGTTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccattctagaaatatgttggcttttctacatttcttcttctgattatgttgcaGATATTGATGAGTGCAAAGAGAAAACAGCCTGTCAATGCCCAGGTTGCAAATGCAAAAACACCTGGGGAAGTTACGAGTGCAAATGCAAAAGTGGTTTGT
                                       ttctgat  putative branch site (score: 3)
                                tttcttcttctgatt  CT-rich tract
        tagaaatat  TA-rich tract