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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatggttcagacaaggtagtttcccattgcccttatcttgtgttctgatttctggcttctgcaatatgctttttcatctctacgcagGAGGCAGAGAATCCTTCTTATGTCTGATCTTCCAAGAAAACAGATTGATAGAGTAGCAGACAATATTGCCAAAGATTTAAATCATATTGATGTCCTTACC

Basic information

species Glycine max
transcript GLYMA20G35310.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35310.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G172410_T01 (Zea mays), 3'ss of exon 7
-------------gtaaatggttcagacaaggtagtttc---ccattgcccttatcttgtgttctgatttctggcttctgc--aata--------tgctttttcat---ctctacgcagGAGGCAGAGAATCCTTCTTATGTCTGATCTTCCAAGAAAACAGATTGATAGAGTAGCAGACAATATTGCCAAAGATTTAAATCATATTGATGTCCTTACC
             |   ||  ||  |   | ||   |||   |  || |  |||     || |  ||| | ||  | ||    | |         || ||| | ||   |  |    |||| ||||| |||||||||| | || ||||||||||| || |||||||||| | | ||||| |   | |||||||||||||| |||||||||||  | |||
gtaatgaaggatggcgtatcattttggttatgttaattcacccttttacttttaagggttgctaagatctatgtatcctatctagtgcctctgattgttttcttatgaacaatgtcaagGAAGCAGAAAATCCTTCTTCTCTCCGATCTTCCAAGGAAGCAGATTGATAAACTTGCAGATAGCTTGGCCAAAGATTTAAACCATATTGATGTATTCACC

upper sequence: GLYMA20G35310.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv05s0020g04630.t01 (Vitis vinifera), 3'ss of exon 8
gtaaatggttcagacaaggtagtttcccattgcccttatcttgtgttctgatttctggcttctgcaatatgcttttt-catctctacgcagGAGGCAGAGAATCCTTCTTATGTCTGATCTTCCAAGAAAACAGATTGATAGAGTAGCAGACAATATTGCCAAAGATTTAAATCATATTGATGTCCTTACC
|||| ||||||  | |  |    |||  | |  |  ||   ||||||   | | |||||| ||   ||        | ||| | |  |||||||||| ||||| |||||| | |||||||||||||| || ||||| || |   | || |||||||||||||||||  | |  |||||||||||||| || 
gtaattggttcttataccgccagttcaaaatatcagtacaatgtgtttgaaatactggctcctatgatccctcgggtgcatatatttgcagGAGGCAAAGAATTCTTCTTCTTTCTGATCTTCCAAGGAAGCAGATGGACAAGCTGGCTGACAATATTGCCAAAGACCTTAGCCATATTGATGTCCTAACA
















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|21601098|gb|BQ611429.1|BQ611429
EST:     TTAAATAAGTATCATGAATTTTCTGTTCTCTTAGGCACACCTACAGCTAG                         GAGGCAGAGAATCCTTCTTATGTCTGATCTTCCAAGAAAACAGATTGATAG
genomic: TTAAATAAGTATCATGAATTTTCTGTTCTCTTAGGCACAGCTACAGCTAGgtaaatggtt ... ctctacgcagGAGGCAGAGAATCCTTCTTATGTCTGATCTTCCAAGAAAACAGATTGATAG
EST: gi|208070753|gb|GD870114.1|GD870114
EST:     TTAAATAAGTATCATGAATTTTCTGTTCTCTTAGGCACAGCTACAGCTAG                         GAGGCAGAGAATCCTTCTTATGTCTGATCTTCCAAGAAAACAGATTGATAG
genomic: TTAAATAAGTATCATGAATTTTCTGTTCTCTTAGGCACAGCTACAGCTAGgtaaatggtt ... ctctacgcagGAGGCAGAGAATCCTTCTTATGTCTGATCTTCCAAGAAAACAGATTGATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcttgtgttctgatttctggcttctgcaatatgctttttcatctctacgcagGAGGCAGAGAATCCTTCTTATGTCTGATCTTCCAAGAAAACAGATTGATAGAGTAGCAGACAATATTGCCAAAGATTTAAATCATATTGATGTCCTTACC
          ttctgat  putative branch site (score: 3)
                                  tgctttttcatctct  putative PPT
                                     tttttcat  TA-rich tract