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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttgaaagttgaaagtcctaaccctgctttatttgctttttagatattttcttgctgtttatttgatctgtgttttcccttctcttggtagGTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGGGCAGTCACTCAGCCTCCTAACTTATCAATTGTCACGGAATATTTATCTA

Basic information

species Glycine max
transcript GLYMA13G21480.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G21480.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g32610.3 (Oryza sativa), 3'ss of exon 9
--gtatgcttgaaagttgaaa-gtcctaaccctgctttatttgctt-tttagatattttcttgctgt-ttatttgatctgtgttttcccttctcttggtagGTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGGGCAGTCACTCAGCCTCCTAACTTATCAATTGTCACGGAATATTTATCTA
  | ||| |   | ||||     | | |   |   | |||  | |  ||||   || |  |  |  | | | || |  |||    |    ||   || ||||||||||| |||||| || | || ||||||||||||||  | |||||||| || || |||||||| || ||  | || ||||| || |||||| |||| |
gagaatgttaagatgttgccccattcaaggtcacatgtataagttgatttaatcatgtaatgtccatgtcacttaacatgttaggtattctcctctg-tagGTTGCAATTATGAAAAGTCTGCGCCATCCAAACATTGTCCTTTTTATGGGTGCTGTTACTCAGCCACCAAAACTTTCGATTGTGACAGAATATCTATCAA

upper sequence: GLYMA13G21480.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
gtatgcttgaaa-gttgaaagtcctaaccctgctttatttgctttttagatattttcttgctgtttatttgatctgtgttttcc------cttctcttggtagGTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGGGCAGTCACTCAGCCTCCTAACTTATCAATTGTCACGGAATATTTATCTA
  || ||| | | ||||        ||      | ||| ||| || | | ||   |  || |||| ||||    | |  | |         |  |||| |||||||||||| |||| | |||| || ||||| ||||||||| |  ||||||| || ||||||||||| |||||| | |||||||| || |||||  |||| |
--atacttaagatgttgcctcattgaagaactatatatatgcattgttg-tagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA
















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|9820117|gb|BE555627.1|BE555627
EST:     TGATGGAACAGGATTTTCATGCTGAGCGCTTCAAGGAATTCCTAAGGGAG                         GTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGG
genomic: TGATGGAACAGGATTTTCATGCTGAGCGCTTCAAGGAATTCCTAAGGGAGgtatgcttga ... ctcttggtagGTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGG
EST: gi|19271170|gb|BM887426.1|BM887426
EST:     TGATGGAACAGGATTTTCATGCTGAGCGCTTCAAGGAATTCCTAAGGGAG                         GTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGG
genomic: TGATGGAACAGGATTTTCATGCTGAGCGCTTCAAGGAATTCCTAAGGGAGgtatgcttga ... ctcttggtagGTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttagatattttcttgctgtttatttgatctgtgttttcccttctcttggtagGTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGGGCAGTCACTCAGCCTCCTAACTTATCAATTGTCACGGAATATTTATCTA
                        atttgat  putative branch site (score: 5)
                              tctgtgttttcccttc  CT-rich tract
       atattttctt  TA-rich tract