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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcttctaaacagatttcctcaagttatgtacactgtccaagtctatgcatacctaaacatattttcacccaactcttgcagGCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATCTTCCTTTATGTTGGTATGGATGCCTTGGACATTGAAAAATGGAAATTCGTCAGTGAT

Basic information

species Glycine max
transcript GLYMA10G30020.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 9
gtatgtc----ttctaaacagatttcctcaagttatgtacactgtccaagtctat-gcatacctaaacatat------------tttcacccaactcttgcagGCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATCTTCCTTTATGTTGGTATGGATGCCTTGGACATTGAAAAATGGAAATTCGTCAGTGAT
|||  |     |||| |    || | ||   |||   |     |    |||   | | | | ||||||| |             |||   ||        ||||||  | ||||||||  |||| ||  |||||||||  ||| ||||||| |||||||| |||||||| ||||| |||||||||||| | || | |||||| 
gtaaattataattctcattccatattctactgtttaatgattagcttcagttcgtagaaaaactaaacaaaacttactggtttgttttgtcctttcacctcagGCACGCATTTGCAACTCTGTCCTTCATTGCTGAGACTTTTCTCTTCCTGTATGTTGGGATGGATGCATTGGATATTGAAAAATGGGAGTTTGCCAGTGAC

upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 10
----gta-tgtcttctaaacagatttcct--caagttatgtacactgtccaag---------tctatgcata---cctaaacatatt-ttcacccaactcttgcagGCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATCTTCCTTTATGTTGGTATGGATGCCTTGGACATTGAAAAATGGAAATTCGTCAGTGAT
    ||| |||||  ||| ||| ||| ||  |||    |||    | |   ||         | |||| |||   | |    ||||| ||||  ||  | || ||||||  ||||||| || || || ||  ||||||| || ||| | || || |||||||| ||||||||  |||||||||||||||||||||| |  ||    
gtatgtactgtctgataatcagttttactggcaacccttgtggtttcttttagatgaaaatatttatgtatatggcttcctgatattcttcattca--ttttacagGCACACTTTTGCTACTTTATCTTTCATTGCTGAAATTTTTCTATTTCTCTATGTTGGGATGGATGCACTGGACATTGAAAAATGGAAATTAGCTAGCAGC

upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 10
gtatgtcttct----aaacagatttcctc----aagttatgtacactg--tccaagtctatgcatacctaa-acatattttcacccaac-tcttgcagGCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATCTTCCTTTATGTTGGTATGGATGCCTTGGACATTGAAAAATGGAAATTCGTCAGTGAT
||||||||| |    |  ||| ||| ||     || |||||     |   ||  |   |||| ||||  |   |  |||||| |    | | |||||||||| |||||||||| || |||||  |||| || || ||  | ||||| |||||||| |||||||| ||||||||||| || |||||||| |  |||   
gtatgtcttttctggattcagtttttctagcaaaaattatggttcttacttcttacattatgtatactaattgctgattttctctttccatgttgcagGCATACTTTTGCAACTTTATCATTCATTGCAGAAATTTTCCTTTTCCTCTATGTTGGGATGGATGCATTGGACATTGAGAAGTGGAAATTAGCTAGTAGC

upper sequence: GLYMA10G30020.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 9
-------------------------gtatgtcttctaaacagatttc----------ctcaagttatgtacactgtccaagtctatgcatacctaaacatattttcacccaactcttgcagGCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATCTTCCTTTATGTTGGTATGGATGCCTTGGACATTGAAAAATGGAAATTCGTCAGTGAT
                         | |  | || |   |||  ||            ||||   ||      |  |    | ||||| |   | ||  | | |  |   || |    ||||||| ||||||| |||||||||||||| |||||||| || |||||||||||||||||||||||||||||||||||||| ||||||| ||| || ||  | 
gtatgtattttcctgaaagcaattggaacattttttggtcaggatttatatttttatttcaaaaaataggtcattactggctgtatgcctgttttaatttctgtctataaaatttccacagGCATGCTTTTGCGACCTTGTCATTTGTAGCTGAGATTTTCATCTTCCTTTATGTTGGTATGGATGCCTTGGACATTGAGAAATGGAGATTTGTGAGCAAA

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|8402106|gb|BE057740.1|BE057740
EST:     TCTCATTATACCTGGCATAACGTGACCGAGAGTTCAAGAATCACTACCAA                         GCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATC
genomic: TCTCATTATACCTGGCATAACGTGACCGAGAGTTCAAGAATCACTACCAAgtatgtcttc ... actcttgcagGCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATC
EST: gi|21601836|gb|BQ612167.1|BQ612167
EST:     TCTCATTATACCTGGCATAACGTGACCGAGAGTTCAAGAATCACTACCAA                         GCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATCTTCCTTTA
genomic: TCTCATTATACCTGGCATAACGTGACCGAGAGTTCAAGAATCACTACCAAgtatgtcttc ... actcttgcagGCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATCTTCCTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtacactgtccaagtctatgcatacctaaacatattttcacccaactcttgcagGCATTCTTTTGCAACCTTGTCATTTGTTGCTGAGATCTTTATCTTCCTTTATGTTGGTATGGATGCCTTGGACATTGAAAAATGGAAATTCGTCAGTGAT
                        acctaaa  putative branch site (score: 3)
                                              ctcttgc  putative PPT
                           taaacatattttca  TA-rich tract