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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccaatttgtatatgatttagtttatagtatagatggtaaaaccatagagtttgaaggatgctagtagttcataattacttttttttggtttgtgaagGATGCACAGGATCTTGGCATTTCTATTGAACTTCTTCCCTTGAGTCACCCTGATGAGGTGTTCAATGTATCTCAATTCTATGCT

Basic information

species Glycine max
transcript GLYMA20G39280.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G39280.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os07g08729.1 (Oryza sativa), 3'ss of exon 6
--gtaccaatt---tgtatatgatttagtttatagtatag-atggtaaaaccatagagtttgaaggatgctagtagttcataattacttttttttggtttgtgaagGATGCACAGGATCTTGGCATTTCTATTGAACTTCTTCCCTTGAGTCACCCTGATGAGGTGTTCAATGTATCTCAATTCTATGCT
   | || ||      |||||| |  | ||  |  |  |  |    || |    |   | | |  |    | ||| |   |||||   | || |   ||  |  |||||||||| ||||||||| | || |||||||||||||| ||||||   || ||||||| ||||||  | || |  || ||||| 
gtatgcctatgacagatatatgttcaatttcgtgctgaatcacaacaacataccatgttcttagtggcctttgta-tcattaattgtctattgtc--ttcctacagGATGCACAAGATCTTGGCCTGTCCATTGAACTTCTTCCTTTGAGTAGGCCCGATGAGGAGTTCAACATGTCCCTGTTTTATGCA

upper sequence: GLYMA20G39280.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G414496_T05 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------------------------------------gtaccaatttgtatatg-atttagtttatagtatagatggtaaaacca-tagagtttgaaggatgctagtag----ttcataattacttttttttggtttgtgaagGATGCACAGGATCTTGGCATTTCTATTGAACTTCTTCCCTTGAGTCACCCTGATGAGGTGTTCAATGTATCTCAATTCTATGCT
                                                                                             |||  || | | | | ||  | |||   | |     |    |||  | |  |  ||   |  | ||      || |  || ||  |  |||  ||| |  |||||||||| ||||||||| | |||||||||||||||||  |||| |  ||||||||   ||||||  | || |  || ||||| 
gtgagtaaacgaattcttatattcaccaatgaagatgatccttttggtactattacaggagcagtgaaaactgatatgattaggacaacacttcaacgtgcaaaggcaattcttctatttaaaactgcatgctgccagcacatctcaaaatgtttttgtcctttttttaccataacaatacttttttttctccagGATGCACAAGATCTTGGCCTGTCTATTGAACTTCTTCCACTGAGCCCGCCTGATGACCAGTTCAACATGTCCCTGTTTTATGCA

upper sequence: GLYMA20G39280.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G414496_T07 (Zea mays), 3'ss of exon 6
gtaccaatttgtatatgatttagtttatagtatagatggtaaaac-catagagtttgaaggatgctagtagttcataattacttttttttggtttgtgaagGATGCACAGGATCTTGGCATTTCTATTGAACTTCTTCCCTTGAGTCACCCTGATGAGGTGTTCAATGTATCTCAATTCTATGCT
    |||||  | |||  || |   |  | |   |   | | | | || |  ||||      ||    |  || |  || ||  |  |||  ||| |  |||||||||| ||||||||| | |||||||||||||||||  |||| |  ||||||||   ||||||  | || |  || ||||| 
---gcaattcttctat--ttaaaactgca-tgctgccagcacatctcaaaatgtttt-----tgtcctttttttaccataacaatacttttttttctccagGATGCACAAGATCTTGGCCTGTCTATTGAACTTCTTCCACTGAGCCCGCCTGATGACCAGTTCAACATGTCCCTGTTTTATGCA

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|18040442|gb|BM308736.1|BM308736
EST:     AAGGGGCAGTAAAATCAGATATGACAAGAATGACACTGCAGAGAGCTAAA                         GATGCACAGGATCTTGGCATTTCTATTGAACTTCTTCCCTTGAGTCACCCT
genomic: AAGGGGCAGTAAAATCAGATATGACAAGAATGACACTGCAGAGAGCTAAAgtaccaattt ... gtttgtgaagGATGCACAGGATCTTGGCATTTCTATTGAACTTCTTCCCTTGAGTCACCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catagagtttgaaggatgctagtagttcataattacttttttttggtttgtgaagGATGCACAGGATCTTGGCATTTCTATTGAACTTCTTCCCTTGAGTCACCCTGATGAGGTGTTCAATGTATCTCAATTCTATGCT
                                   cttttttttggttt  CT-rich tract
                      tagttcataattactt  TA-rich tract