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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagtttgttttgtgtaatggatgtctacaaagttcattagtaaacattttttacattttaaagctgtatgcatctgtaacatacttttacttggatgcagAACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCCTCCTACAAAAGTTAGCAACTTGATTTTTGGACGAACTTGGATTGATTCA

Basic information

species Glycine max
transcript GLYMA07G15930.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 6
--tagtttgttttgtgtaatggatgtctacaaagttcattagtaaacattttttacattttaaagctgtatgcatctgtaacatacttttacttggatgcagAACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCCTCCTACAAAAGTTAGCAACTTGATTTTTGGACGAACTTGGATTGATTCA
   |  |   |||||    ||      ||     ||  ||  || ||| ||||   |  |    ||||| |  || |      || |   |     |||||| || ||||| || ||||||||||||||||| ||||| ||||||||||| ||| |||||||||||| |||| | || |||||||| |||||| ||||||||
cggatctcagtttgttgcttgttctcttattgttttagttcatagacaattttagaaactacgtgctgtct-tatttcctttttaatga-atccatatgcagGACACGTGTGACGCTCAAAAGAGATGGTGTAGTCCTAGATTTGGTGCCCCCTGCTACAAAAGTTAACAACCTCATATTTGGACGTACTTGGGTTGATTCA

upper sequence: GLYMA07G15930.3 (Glycine max), 3'ss of exon 6
lower sequence: PP1S20_97V6.1 (Physcomitrella patens), 3'ss of exon 6
tagtttgttttgtgtaatggatgtctacaaagttcattagtaaacattttttacattttaaagctgtatgcatctgtaacatacttttacttggatg------cagAACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCCTCCTACAAAAGTTAGCAACTTGATTTTTGGACGAACTTGGATTGATTCA
 |||  || |  | | |  | | | |        ||  | |     ||| |   |       | || |||  | | |   ||| || |   |  |||      ||| ||  | ||    || |||| |       |||| ||||||||||||||||| || || |||||   |||| || ||||||||||||||||| | ||||| 
-agtgagtgtccttttagaggtttttggcgg---caccaatgtctctttctagtaggccgcggttg-atgt-tttatcttataattgtgggtatatgatcgcgcagGACAAGAGTGTTGCTGAAAAAATCCAACATGGTGCTTGATTTGGTGCCTCCGCCGACCAAAGTGCACAACGTGCTTTTTGGACGAACTTGGGTAGATTCC
















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|23727396|gb|BU761727.1|BU761727
EST:     TTGAAAACCAAATTTCTCGGCAACTCAGTTGATGTATATCCTGTTGGAAG                         AACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCC
genomic: TTGAAAACCAAATTTCTCGGCAACTCAGTTGATGTATATCCTGTTGGAAGgtaatactta ... ttggatgcagAACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCC
EST: gi|254327936|gb|GR834901.1|GR834901
EST:     TTGAAAACCAAATTTCTCGGCAACTCAGTTGATGTATATCCTGTTGGAAG                         AACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCC
genomic: TTGAAAACCAAATTTCTCGGCAACTCAGTTGATGTATATCCTGTTGGAAGgtaatactta ... ttggatgcagAACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCC
EST: gi|254332080|gb|GR846283.1|GR846283
EST:     TTGAAAACCAAATTTCTCGGCAACTCAGTTGATGTATATCCTGTTGGAAG                         AACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCC
genomic: TTGAAAACCAAATTTCTCGGCAACTCAGTTGATGTATATCCTGTTGGAAGgtaatactta ... ttggatgcagAACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttttacattttaaagctgtatgcatctgtaacatacttttacttggatgcagAACGCGTGTTACCCTCAAAAGAGATGGTGTGGTCCTTGATTTGGTGCCTCCTCCTACAAAAGTTAGCAACTTGATTTTTGGACGAACTTGGATTGATTCA
                            ctgtaac  putative branch site (score: 3)
                                      cttttactt  putative PPT
     ttacattttaaa  TA-rich tract