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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCATATAGATTGAACGAAAGTACGGGATACATTGACTATGACCAG

Basic information

species Glycine max
transcript GLYMA18G27710.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 6
gtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCATATAGATTGAACGAAAGTACGGGATACATTGACTATGACCAG
                                                                     || |   ||| | || | ||||    |  || ||||   ||   |    ||     ||  |   |  ||     | |    | | | ||   | || |      |  ||||||||| || || |||||||||||    ||||||||||||||||||||||| || |||||| | ||||| || ||||  ||||| || || |||
---------------------------------------------------------------------atctgcaaatgaatgacattttcccataaat-tcttagtaacattcagata-----tgatgctctagat-----actcctatagctcaaaggttctacctactgtttgcagACTGACACTAAGAAGATATCTGCAACTTCAATATTTTTTGAGACAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG

upper sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G135283_T01 (Zea mays), 3'ss of exon 6
gtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCATATAGATTGAACGAAAGTACGGGATACATTGACTATGACCAG-------
                                                                     || |   ||| | || | ||||    |  || ||||   ||   |    ||     ||  |   |  ||     | |    | | | ||   | || |      |  ||||||||| || || |||||||||||    ||||||||||||||||||||||| || |||||| | ||||| || ||||  ||||| || || |||       
---------------------------------------------------------------------atctgcaaatgaatgacattttcccataaat-tcttagtaacattcagata-----tgatgctctagat-----actcctatagctcaaaggttctacctactgtttgcagACTGACACTAAGAAGATATCTGCAACTTCAATATTTTTTGAGACAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGGTCATTT

upper sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0211g00160.t01 (Vitis vinifera), 3'ss of exon 6
gtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCATATAGATTGAACGAAAGTACGGGATACATTGACTATGACCAG-------
                                                                  | | | ||||| ||  ||   | |   | ||  |    ||      |||      || |||   || |   ||  |     ||  |   | || |    |||||   |  |||||| || ||||| || |||||||| || || |||||||||||||||||||||||||||||||| || || || || ||||||||||||||||||       
-----------------------------------------------------------------aggtttctaatatttgatgatctctccttgtttgtggtatt------att------actttgccttcttatgtgctagggagtaacctcctcatttcttcgctat---tgtgcagACCGACACCAAGAAAATATCTGCAGTGTCTATATTTTTTGAGACAATGCCATATAGATTGAATGAGAGCACTGGCTACATTGACTATGACCAGGTAACTT

upper sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0211g00120.t01 (Vitis vinifera), 3'ss of exon 6
gtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCATATAGATTGAACGAAAGTACGGGATACATTGACTATGACCAG
                                                           || | |   ||||| || ||     |||  ||  || || |||  || |   |  |   ||     | ||| || |||              |   | || |    |||||   |  |||||| || ||||| || |||||||| || || |||||||||||||||||||||||||||||||| || || || || ||||||||||||||||||
-----------------------------------------------------------gtttctaa-tatttgatgatc----tctccttgtttgtggtattattactttgccttcttatgtgctagggacagtaac-------------ctcctcatttcttcgctat---tgtgcagACCGACACCAAGAAAATATCTGCAGTGTCTATATTTTTTGAGACAATGCCATATAGATTGAATGAGAGCACTGGCTACATTGACTATGACCAG

upper sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv00s0211g00100.t01 (Vitis vinifera), 3'ss of exon 6
gtacttttgaagtttgaacttccaccattcatttcatcttataatcaaatctatagtgtgtatatggctatttaataattattgtcttttttattttgatatcttttcaaagattgagtagaccttggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCATATAGATTGAACGAAAGTACGGGATACATTGACTATGACCAG
                                                           || | |   ||||| |  ||     |||  ||  || || |||  || |   |  |   ||     | ||| || |||              |   | || |   ||||||   |  ||||||||| ||||| || |||||||| || || |||||||||||||||||||||||||||||||| || || || || ||||||||||||||||||
-----------------------------------------------------------gtttctaa-tatttgaggatc----tctccttgtttgtggtattattactttgccttcttatgtgctagggacagtaac-------------ctcctcatttctttgctat---tgtgcagACTGACACCAAGAAAATATCTGCAGTGTCTATATTTTTTGAGACAATGCCATATAGATTGAATGAGAGCACTGGCTACATTGACTATGACCAG

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|208277881|gb|GE074888.1|GE074888
EST:     CACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAG                         ACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCA
genomic: CACTTGATCTTCCTCATGGTGGCCATCTTTCTCATGGATATCAGgtacttttga ... aactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggggtcattaatgaaaaattatactcgtttaatattgctgctataactacgcagACTGATACCAAAAAGATATCTGCTGTCTCAATATTTTTTGAGACAATGCCATATAGATTGAACGAAAGTACGGGATACATTGACTATGACCAG
                                         ctataac  putative branch site (score: 3)
       attaatgaaaaattat  TA-rich tract