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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgtttgaaattattgcataaacactgttatgctattttaatggtgtaagctgcttataaaattttgatgttcaattttgctagGCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGTTTGGGCCAAAATTTTGCTAAAATGTTTGAGATAAACTTTGAAAATGAAA

Basic information

species Glycine max
transcript GLYMA03G38340.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G38340.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g25710.3 (Oryza sativa), 3'ss of exon 7
-------------gtatatgtttgaaattattgcataaacactgttat-gctattttaatggtgtaagctgcttat-----------aaaattttgatgttcaattttgct---agGCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGTTTGGGCCAAAATTTTGCTAAAATGTTTGAGATAAACTTTGAAAATGAAA
              | | || || |    |    || |    |  | | | ||   | |||  | |   | |||||             |||  | |  ||  ||  |  |   |||| || ||||||||||| || |||||| ||||||| ||||| || |||||| | || ||||| ||||| || |||||||| || |  ||||| ||||| |
gtattaatatgaaatgtttgcttcattccacccgattagtttttctgtagttaccctgatgaagaagagtacttatctttatatttagtaataataaaattttatcatatttgcagGCCTTCATTCCAAACACAGGACGTGGTGTACAAGGGGCAACATCACATTGTCTTGGTCAAAACTTTGCAAAGATGTTTGATATCACTTTTGAGAATGATA

upper sequence: GLYMA03G38340.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G094123_T01 (Zea mays), 3'ss of exon 7
--------------gtatatgtttgaaattattgcataaacactgttatgcta------ttttaatggtgtaagctgcttataaaat-tttgatgttcaat-----tttgctagGCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGTTTGGGCCAAAATTTTGCTAAAATGTTTGAGATAAACTTTGAAAATGAAA
               || |   ||| |    || | |||  |   | |||  |        |||||      |  |  || ||| ||  ||| || | |||     ||| | |||| || |||||||||||||||||||| |||||||| ||||| || || ||| | || ||||| ||||| || |||||||| || |  ||||| ||||| |
gtattgatacattcctaaaatattgtagcctttccttaactaacctgatgaaaaaaggaaattaattccagtattttattgtaatatgcttgttgctaaatattgttttaccagGCCTTCATTCCAAACACTGGTCGTGGCATACAAGGCGCAACCTCACACTGTCTTGGTCAAAACTTTGCCAAGATGTTTGATATCACTTTTGAGAATGAGA

upper sequence: GLYMA03G38340.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatatgtttgaaattattgcataaacactgttatgctattttaatggtgtaagctgcttataaaattttgatgttcaattttgctagGCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGTTTGGGCCAAAATTTTGCTAAAATGTTTGAGATAAACTTTGAAAATGAAA
     | | | |  || |||     | |||       | || |  ||| ||   ||   | | || ||  ||  ||  |||||  ||||| || ||||||||||||||||||||| ||||||||||||| |||||||||||||| ||||| ||||| || ||||||||||| |||||||| ||||| |
----gtatgtaatctttttgttctgagacttaaccttttttcttgtgg-gtttactctctgtgaagtt--gaactttgatttta-tagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA

upper sequence: GLYMA03G38340.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0005g02620.t01 (Vitis vinifera), 3'ss of exon 8
-------------------------------------------------gtatatgtttgaaattatt-gcataaacactgttatgctattttaatggtgtaagctgcttataaaattttgatgttcaattttgct-agGCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGTTTGGGCCAAAATTTTGCTAAAATGTTTGAGATAAACTTTGAAAATGAAA
                                                   ||   ||  |||   || |||| |||  |  | || | | | |  |  |||| |||  || |  || |   |||| |  |||  | |||| ||||||||||||||||||||||||||||| ||||||||||| |||||||| || ||||||||||| ||||||||||| |||| |||||||||||| |
gtacttgatttttatttatctgcttgcactccatcctttgtccatcatccaatgaattgcaaaccgtttgcattaactattctgtgttctatgatagaagtaaactgtgta-attatgtctgtgtttaccttttttcagGCCTTTATTCCAAACACTGGTCGTGGTATACAGGGTGCAACTTCACATTGTTTAGGTCAAAATTTTGCAAAAATGTTTGATATAACCTTTGAAAATGAGA

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|208322193|gb|GE122164.1|GE122164
EST:     AAAGTGAGCTTGAGAAGTTTGCTGGTGGACTCTACACTACTAGTGTTGAG                         GCATTTATTCCAAACACTGGTCGTGGTATACAAGGT
genomic: AAAGTGAGCTTGAGAAGTTTGCTGGTGGACTCTACACTACTAGTGTTGAGgtatatgttt ... attttgctagGCATTTATTCCAAACACTGGTCGTGGTATACAAGGT
EST: gi|19053180|gb|BM731847.1|BM731847
EST:     AAAGTGAGCTTGAGAAGTTTGCTGGTGGACTCTACACTACTAGTGTTGAG                         GCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGT
genomic: AAAGTGAGCTTGAGAAGTTTGCTGGTGGACTCTACACTACTAGTGTTGAGgtatatgttt ... attttgctagGCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgctattttaatggtgtaagctgcttataaaattttgatgttcaattttgctagGCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGTTTGGGCCAAAATTTTGCTAAAATGTTTGAGATAAACTTTGAAAATGAAA
                                              ttttgct  CT-rich tract
                         ttataaaattttgatg  TA-rich tract