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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggagcaacaatgctgattatgggttttgtcttttggaaaattgaattatcagtcactggttcagttataaccagatgctttaaaaactgatactcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG

Basic information

species Glycine max
transcript GLYMA20G37370.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 12
--------------gtaggagcaacaatgctgattatgggttt-------tgtcttttggaaaattg--aattatcagtcactggttcagttataaccagatgctt----taaaaactgatactct--taacaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
              | | ||  |    | |  |  ||  || |       | ||| ||   |  |||  | | || |||| | ||   |||       || | |||    | ||   | |   |||  |  ||| ||||||| || |  || || || |||   ||     |||||||||| |||||||| |||||||||||||| || ||||| |||||  ||
gtcagtccgtcagtgcaagactattgcttcacaccatctgtatatctgtatttctcttctcatcttgccattaattagtcccaggagaagtatgtcttagtttcttctccttaagcttaactgtctcgttgcaattgcagTTTACAAGATCTGGCCATACTCAGCTGCACGGCAATGCAATAATGATCACCAGCACCATCACTGTCGTTCTTTTTAGCACTATG

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os07g47100.3 (Oryza sativa), 3'ss of exon 13
--------------gtaggagcaacaatgctgattatgggttt-------tgtcttttggaaaattg--aattatcagtcactggttcagttataaccagatgctt----taaaaactgat--actcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG----------------
              | | ||  |    | |  |  ||  || |       | ||| ||   |  |||  | | || |||| | ||   |||       || | |||    | ||   | |    ||| |  ||| ||||||| || |  || || || |||   ||     |||||||||| |||||||| |||||||||||||| || ||||| |||||  ||                
gtcagtccgtcagtgcaagactattgcttcacaccatctgtatatctgtatttctcttctcatcttgccattaattagtcccaggagaagtatgtcttagtttcttctccttaagcttaactgtctcgttgcaattgcagTTTACAAGATCTGGCCATACTCAGCTGCACGGCAATGCAATAATGATCACCAGCACCATCACTGTCGTTCTTTTTAGCACTATGGTGAGTCATCTTACTG

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 3'ss of exon 11
gtaggagcaacaatgctgattatgggttttgtcttttggaaaattgaattatcagtcactggttcagttataaccagatgctttaaaaactgatactcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
        |||     |||   ||| |||| | | || |    ||    ||| |   | || |||     | |     || | | |||  ||  ||| |  |||  |||||||||| | ||| || ||||||  |||    || ||||| ||||||||||| || || ||||||||||| |||||||||||  ||
-------taacttgtttgaggctggattttttttgtttgct--ttcgtgtattaactattg-ttcgtaattcatgctttgatctgaaacttgtcact-tcgacacttgcagTTCACAAGGTCAGGCCACACTCAACTCCCTAGTAATGCTATCATGATCACTAGTACAATCACTGTTGTTCTTTTCAGCACGATG

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G037342_T02 (Zea mays), 3'ss of exon 13
gtaggagcaacaatgc-tgattatgggttttgtcttttggaaaattgaattatcagtcactggttcagttataaccagatgctttaaaaactgatactcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
          | ||   ||  |        || | |    |    || | | | |     |  ||    | |      |||||||  |  |||||  |||   |   | |||||||| |  || || || |||  || |   |||||||| ||||||||||||||||| ||||  ||||| |||||||||||| | 
-------tgcctatatatgcctcaatagactggcctcaaaaggtctggaatgttaagtgttcatttgtctgttgttc-atgcttttgat-ctgattttctattc---tccagTTCACAAGATCAGGCCATACTCAACAACCTAGCAATGCTATCATGATCACAAGCACAATCAGCGTTGTTCTTTTCAGCACAATT

upper sequence: GLYMA20G37370.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 3'ss of exon 12
gtaggagcaacaatgctgattatgggttttgtcttttggaaaattgaattatcagtcactggttcagttataaccagatgctttaaaaactgatactctta--acaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
            ||| |||  || | ||    |  ||  ||||  | |  |   ||   |  || | ||| ||  | | | | |||   || ||  | |||  | | ||||||||  | | |||||| || |||  | |  ||   |||||||||||||| || |||||||| || ||||| |||||||||||||||
---------tggatggtgag-atagattcatgcaatttcaaaagggcaggagaggtt--ttattaattta-aaaaaaaggatataattccttatggtgttacaatatatgcagTTTGCAAGGTCGGGACATACTCAATTGCGATCAAATGCAATCATGATTACCAGCACCATAACAGTTGTTCTTTTCAGCACAGTG

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|26047716|gb|CA784423.1|CA784423
EST:     GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAG                         TTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAGgtaggagcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
EST: gi|14991594|gb|BI317267.1|BI317267
EST:     GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAG                         TTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAGgtaggagcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
EST: gi|5677123|gb|AI938253.1|AI938253
EST:     GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAG                         TTCACCATGTCTGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAGgtaggagcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
EST: gi|22523871|gb|BU082682.1|BU082682
EST:     GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCTT                         TTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAGgtaggagcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
EST: gi|24136423|gb|BU926933.1|BU926933
EST:     GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAG                         TTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA
genomic: GGGCTGGTCTTATGAGAGGTGCTGTTTCAATCGCACTTGCATATAATCAGgtaggagcaa ... acaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactggttcagttataaccagatgctttaaaaactgatactcttaacaaatgcagTTCACCATGTCGGGGCACACTTCACTAAGAAGCAATGCAATCATGATCACAAGCACCATCACTGTTGTGCTTTTCAGCACAGTG
                                        tcttaac  putative branch site (score: 2)
                         tttaaaaactgata  TA-rich tract