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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatttttgttacactgtcttttatatatcaaaccaatacatatactaacatagttttatctttaaagGGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATACTGTCGGTTTCAAGTGGCGATTCCACCAACAAAGTCAAATGTGAAAA

Basic information

species Glycine max
transcript GLYMA01G42360.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G42360.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G896082_T03 (Zea mays), 3'ss of exon 8
------------------gtaaaatttttgttacactgtcttttatatatcaaaccaatacatatactaacatagttttatctttaa-----agGGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATACTGTCGGTTTCAAGTGGCGATTCCACCAACAAAGTCAAATGTGAAAA
                   |  | | ||  |||          | |||||  ||  |  |   | ||| |     || | | | |       |||| || ||||| || ||||||||||||||    || |||||||||||||||||||| || || ||||||| | | || |||||||| ||||||| |||
gtatgtgttggtcgtgccatccattgttctttatgacagagaatgtatattgaagtagaagggaaactgatgattttatttttctggggatcagGGGCCATGTCCTAATTGTGGTACTGAAAACCTTTCCTTCTTTGGGACTATACTGTCAGTCTCCAGTGGCGGTACAACAAACAAAGTGAAATGTGCAAA

upper sequence: GLYMA01G42360.1 (Glycine max), 3'ss of exon 8
lower sequence: AC203966.5_FGT002 (Zea mays), 3'ss of exon 7
---------gtaaaatttttgttacactgtctttta----tatatcaaaccaat--acatatactaacatagttttatctttaaagGGC-CCTTGTCCCAACT-GTG---GTACTGAAAATAC-CTCTTTCTTTGGGACTATACTGTCGGT-TTCAAGTGGCGATTCCACCAACAAAGTCAAATGTGA---AAA------
          |   | | |  |  || | ||   |     || | ||||| ||   | || | | ||    ||    |  | | ||  |   || ||   | | |||      ||    ||   ||  ||  |  | |  |  ||  |  | ||| | |  |  || ||    | |  |  | | |||   |||      
tttccttctttgggactatactgtcagtctccagtggcggtacaacaaacaaagtgaaatgtgcaaagtatgtccctttatcatagatcatgttatctagATTCGTGTCTACCCTCTTGATGTGCTTATTTCTAAGAAGCACCCTTCCAATGTTCTATTTCCAGTTGCAGTGCCGAGCTGGAGTATGACTCAAAATCTCG
















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|8669397|gb|BE190504.1|BE190504
EST:     TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAG                         GGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATA
genomic: TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAGgtaaaatttt ... atctttaaagGGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATA
EST: gi|192313508|gb|FK004132.1|FK004132
EST:     TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAG                         GGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATA
genomic: TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAGgtaaaatttt ... atctttaaagGGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATA
EST: gi|192319988|gb|FK013008.1|FK013008
EST:     TGGCTCAATCGATCACTAGG-CAATTGTACA-GATTTTCTGATTTTAAAG                         G-CCCT-GTCCCA-CTGTGGTACTGAAAATA
genomic: TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAGgtaaaatttt ... atctttaaagGGCCCTTGTCCCAACTGTGGTACTGAAAATA
EST: gi|22524713|gb|BU083524.1|BU083524
EST:     TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAG                         GGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATA
genomic: TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAGgtaaaatttt ... atctttaaagGGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATA
EST: gi|192313523|gb|FK004133.1|FK004133
EST:     TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAG                         GGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATA
genomic: TGGCTCAATCGATCACTAGGGCAATTGTACAAGATTTTCTGATTTTAAAGgtaaaatttt ... atctttaaagGGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtcttttatatatcaaaccaatacatatactaacatagttttatctttaaagGGCCCTTGTCCCAACTGTGGTACTGAAAATACCTCTTTCTTTGGGACTATACTGTCGGTTTCAAGTGGCGATTCCACCAACAAAGTCAAATGTGAAAA
                              tactaac  putative branch site (score: 0)
                                         ttttatcttt  putative PPT
                           atatactaacatagtt  TA-rich tract