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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattagatgcaccattttttctcttaacattaccttataatcttaaagttttgctgaaaagattattgttcataattcaaagctgaatcgcttccttatatttttcatatatacaccttttttgcactaaacatcattttccttgttcagGCAAATATACTCCCCAATATGAATGGCTTGAGGCAGAGCTACCAAAGGTTGATAGAACCAAGACCCCTTGGTTGATTGTTCTTGTGCATTCTCCATGGTA

Basic information

species Glycine max
transcript GLYMA12G34960.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G34960.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g00220.t01 (Vitis vinifera), 3'ss of exon 5
gtaatattagatgcaccattttttctcttaacattaccttataatcttaaa--gttttgctg---------aaaagattattgttcata-attcaaagctgaatcgcttcc-ttatatttttcatatatacaccttttttgcactaaacatcatt--ttccttgt---------------tcagGCAAATATACTCCCCAATATGAATGGCTTGAGGCAGAGCTACCAAAGGTTGATAGAACCAAGACCCCTTGGTTGATTGTTCTTGTGCATTCTCCATGGTA
     | |  || |||   ||| |   ||||  |||  ||||  | |  |   ||||  ||          |  | |   |||  ||||   |||    |||  ||   || ||  ||||  || | || |  ||  |       ||  ||  ||  |  || ||               ||||| || || ||||| ||||||||||||||  |    |||||||| || ||| | || ||  |||| || ||||||||||||||||||||||| ||||||||
--gcaagtgtattcacatctttcttctttaattttattttattttttccatatgtttcactactgtggtgcactaaacatttgagcatacggtcaggtttgacacgaacccgttgaatttaccaaaaatgctactggtcaatgtgaaggatttttgatatctcgtagctgattaattgtttcagGGAAGTACACTCCTCAATATGAATGGCTCCAACAGGAGCTACCCAAAGTTAACAGGACAGAGACACCATGGTTGATTGTTCTTGTGCATTCCCCATGGTA
















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|192310987|gb|FK000378.1|FK000378
EST:     CAAGATAGCTTCGGCACACATCATAGTTTTGGCTTCATATTCAGCTTATG                         GCAAATATACTCCCCAATATGAATGGCTTGAGGCAGAGCTACCAAAGGTTG
genomic: CAAGATAGCTTCGGCACACATCATAGTTTTGGCTTCATATTCAGCTTATGgtaatattag ... ccttgttcagGCAAATATACTCCCCAATATGAATGGCTTGAGGCAGAGCTACCAAAGGTTG
EST: gi|192310988|gb|FK000379.1|FK000379
EST:     TCATATTCAGCTTATG                         GCAAATATACTCCCCAATATGAATGGCTTGAGGCAGAGCTACCAAAGGTTG
genomic: TCATATTCAGCTTATGgtaatattag ... ccttgttcagGCAAATATACTCCCCAATATGAATGGCTTGAGGCAGAGCTACCAAAGGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatttttcatatatacaccttttttgcactaaacatcattttccttgttcagGCAAATATACTCCCCAATATGAATGGCTTGAGGCAGAGCTACCAAAGGTTGATAGAACCAAGACCCCTTGGTTGATTGTTCTTGTGCATTCTCCATGGTA
                             cactaaa  putative branch site (score: 2)
                                      tcattttccttgttc  putative PPT
     tttttcatatataca  TA-rich tract