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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcaaccaaacacattttggaagctgcatttttcatctttctcccagataggaaactgaagaattatcttttttactattttaattaattttcatgtcagCTATTTGCTGGGATCAGTGGTTTCCTGAGGCAGCCCGAGCAATGGTGCTTCAAGGTGCTGAGATTCTATTTTATCCTACTGCTATTGGGTCTGAACCTCA

Basic information

species Glycine max
transcript GLYMA12G31100.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G31100.2 (Glycine max), 3'ss of exon 7
lower sequence: AT2G27450.2 (Arabidopsis thaliana), 3'ss of exon 6
agcaaccaaacacattttgga-agctgcatttttcatctttctcccagataggaaactgaagaattatcttttttactattttaattaattttcatgtc-agCTATTTGCTGGGATCAGTGGTTTCCTGAGGCAGCCCGAGCAATGGTGCTTCAAGGTGCTGAGATTCTATTTTATCCTACTGCTATTGGGTCTGAACCTCA
       | |  |  | || | | ||   ||| | || |   |  |           ||     | |||||  ||  | |  |||| || | |  |||  |||||| || |||||||||||||||||||||||||| ||||| ||||| || || |||||||| || || |||||||| ||||||||||| |||||||||||
----gtaagatgctctatgcagaactctgtttctaatgtccttttcg---------ttgttacttcatcttaattgatgtactaatgaaatgtattgtttagCTATATGTTGGGATCAGTGGTTTCCTGAGGCAGCTCGAGCTATGGTTCTACAGGGTGCTGAAATACTGTTTTATCCCACTGCTATTGGTTCTGAACCTCA

upper sequence: GLYMA12G31100.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0080g00560.t01 (Vitis vinifera), 3'ss of exon 6
agcaaccaaacacattttggaagc-tgcatttttcatctttctcccagataggaaactgaagaatta---tcttttttactattttaattaattttcatgtcagCTATTTGCTGGGATCAGTGGTTTCCTGAGGCAGCCCGAGCAATGGTGCTTCAAGGTGCTGAGATTCTATTTTATCCTACTGCTATTGGGTCTGAACCTCA
 |   |       |   || || | || || | | |  ||   | ||| |  ||| | | |   |||   | |  || || |||| | |  ||||| |||||||| || |||||||||||||||||||| |||||||| ||||| ||||| ||||||||||| |||||||| || || ||||||||||||||||||||||||||
-ggctctggctttacaatgcaaacatgaatgtgttaattt---cacagcttagaagcaggatttttagtgtttgcttcaccatttcattgtattttaatgtcagCAATATGCTGGGATCAGTGGTTTCCAGAGGCAGCTCGAGCTATGGTTCTTCAAGGTGCAGAGATTCTTTTGTACCCTACTGCTATTGGGTCTGAACCTCA
















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|18040291|gb|BM308585.1|BM308585
EST:     GTTTTCCAGACTAAATTTGCAAAGATTGGAGTTG                         CTATTTGCTGGGATCAGTGGTTTCCTGAGGCAGCCCGAGCAATGGTGCTTC
genomic: GTTTTCCAGACTAAATTTGCAAAGATTGGAGTTGgtaagaactt ... ttcatgtcagCTATTTGCTGGGATCAGTGGTTTCCTGAGGCAGCCCGAGCAATGGTGCTTC
EST: gi|58025178|gb|CX711919.1|CX711919
EST:     GTTTTCCAGACTAAATTTGCAAAGATTGGAGTTG                         CTATTTGCTGGGATCAGTGGTTTCCTGAGGCAGCCCGAGCAATGGTGCTTC
genomic: GTTTTCCAGACTAAATTTGCAAAGATTGGAGTTGgtaagaactt ... ttcatgtcagCTATTTGCTGGGATCAGTGGTTTCCTGAGGCAGCCCGAGCAATGGTGCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agataggaaactgaagaattatcttttttactattttaattaattttcatgtcagCTATTTGCTGGGATCAGTGGTTTCCTGAGGCAGCCCGAGCAATGGTGCTTCAAGGTGCTGAGATTCTATTTTATCCTACTGCTATTGGGTCTGAACCTCA
                                     aattaat  putative branch site (score: 3)
                                           ttttcat  CT-rich tract
       aaactgaagaattatc  TA-rich tract