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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggacatccctggcatacttcatgtgttaggatcagacgtatttgatttcttggtagctataggccaacttgttattcctgatctaggatgtttatccacttgcatagGGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCAAAAAACCGATATTTTGACTTTGACAAACTGGGAGAG

Basic information

species Glycine max
transcript GLYMA05G32070.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 9
gtaggacatccctggcatacttcatgtgttaggatcagacgtatttgatttcttggtagctataggccaacttgttattcctgatctaggatgtttatccacttgcatagGGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCAAAAAACCGATATTTTGACTTTGACAAACTGGGAGAG
              | || |   |||    || |   |  ||||   |||| |   | | | ||||     |||  ||| ||| | |   | |   |   | |||   ||||||| || ||||| ||||||||  ||||||||||||| || |  || || ||||||||||||||||||||||| ||| | |  |||
--------------gtatgcactatgc---agtactggctgtat--aatttttgatttgttgtagg-----ttgaaatttctg-tatctcacgac-acaaatttgttcagGGTGTTCCTATGGAGTCTCATCCGGCTAAGCTTGTTGGTAGTAATGGATCCAAAAACCGATATTTTGACTTTGATAAATTAGCTGAG

upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g07210.1 (Oryza sativa), 3'ss of exon 9
gtaggacatccctggcatacttcatgtgttaggatcagacgtatttgatttcttggtagctataggccaacttgttattcctgatctaggatgtttatccacttgcatagGGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCAAAAAACCGATATTTTGACTTTGACAAACTGGGAGAG
              | |||  |  |  ||   | |  | |  |||| |   ||   | | | || |   || |||     ||||||          || |  |||||  |||||| ||||| || || ||||||||||| ||||| || ||||| |  || |||||  ||||||||||||||||||| || |  |||
--------------gtatatcttgttagt---gctttggctgatttcaaccctaaat-gttgtatgtttacatgt-----ctgatcataag-----attctgttgca--gGGTGTCCCCATAGAGTCCCATCCATCTAAACTTGTCGGGAGCAGTGATTCTAAAAATAGATATTTTGACTTTGACAAGCTTGCTGAG

upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 9
gtaggacatccctggcatacttcatgtgttaggatcagacgt-atttgatttcttggtagctataggccaacttgttattcctgatctaggatgtttatccacttgcatagGGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCAAAAAACCGATATTTTGACTTTGACAAACTGGGAGAG
                                       ||| || |||||     ||   |||     || |  ||  | ||||| |   || ||   | | |||  ||||| || || ||||||||  |||| || ||||||||||| |||||||| || || || |||| |||||| ||||||||||| | ||||
------------------------------------gtgcgtcatatgattgacatgtgtgtatcaa--aattactttgttctgatttgtaatttt---ctatttggttagGGGGTTCCAATGGAATCAAATCCTTCAAAGCTTGTTGGGAGCAGAGGTTCTAAGAATCGATTTTTTGATTTTGACAAACTAGCAGAG

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|192296534|gb|FG991640.1|FG991640
EST:     AACTTGGCATCGATTGCCCTGCCGCGATATGTAAGAGAGAAG                         GGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCA
genomic: AACTTGGCATCGATTGCCCTGCCGCGATATGTAAGAGAGAAGgtaggacatc ... acttgcatagGGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCA
EST: gi|19345937|gb|BM890817.1|BM890817
EST:     CTGTGTGCAACTTGGCATCGATTGCCCTGCCGCGATATGTAAGAGAGAAG                         GGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCA
genomic: CTGTGTGCAACTTGGCATCGATTGCCCTGCCGCGATATGTAAGAGAGAAGgtaggacatc ... acttgcatagGGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagctataggccaacttgttattcctgatctaggatgtttatccacttgcatagGGTGTGCCCATGGAATCTCATCCATCTAAGCTTGTTGGAAGCAGAGGCTCAAAAAACCGATATTTTGACTTTGACAAACTGGGAGAG
                       tcctgat  putative branch site (score: 3)
                                          tccactt  putative PPT
                ttgttatt  TA-rich tract