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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagtttgctggcacatgtggtaagagtaggtaacttgaccactctaatccgatgattctgtcttgctttattattattcattgtgaaatttttgttcagGAAACTGAGGAGATGATTGCAGATGTTCTGGGAGTAGAAGTTTTCAGGCAGACAGTTGCCGGTAATATTCTTGTGGGCAGTTACTGTGTATTCTCCAACA

Basic information

species Glycine max
transcript GLYMA20G35750.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35750.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G318475_T01 (Zea mays), 3'ss of exon 5
--aaagtttgctggcacatgtggtaag-agtaggtaacttgaccactctaatccgatgattctgtcttgcttta--ttattattcat-tgtgaaatttttgttcagGAAACTGAGGAGATGATTGCAGATGTTCTGGGAGTAGAAGTTTTCAGGCAGACAGTTGCCGGTAATATTCTTGTGGGCAGTTACTGTGTATTCTCCAACA
  ||| ||| | ||    || ||     | |  ||  || | ||     | || |   || ||   || | | |   ||  ||   | ||  ||    ||   ||||| ||||||||| | ||||||||||| || || || || || || ||||||||  |||| || ||||| |||||||| |||||||| |  ||||| ||||
gtaaaatttacagGAGACTGAGGAGTTTATTCTGTCGCTAGCCCCTGAAACTCTGCACATCCTCGATTACATCAAGCTAAAATCTTTGTGCTAATGAATTCAACAGGAGACTGAGGAGTTCATTGCAGATGTGCTTGGGGTCGAGGTGTTTAGGCAGACTATTGCTGGAAATATCCTTGTGGGGAGTTACTGCGCCTTCTCTAACA
















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|298183684|gb|HO028897.1|HO028897
EST:     GTATAGCATGTAATGACCATGTGGCCCTCACACACACTGATCTTGACAAG                         GAAACTGAGGAGATGATTGCAGATGTTCTGGGAGTAGA
genomic: GTATAGCATGTAATGACCATGTGGCCCTCACACACACTGATCTTGACAAGgtattgtctt ... ttttgttcagGAAACTGAGGAGATGATTGCAGATGTTCTGGGAGTAGA
EST: gi|298165809|gb|HO008780.1|HO008780
EST:     GTATAGCATGTAATGACCATGTGGCCCTCACACACACTGATCTTGACAAG                         GAAACTGAGGAGATGATTGCAGATGTTCTGGGA
genomic: GTATAGCATGTAATGACCATGTGGCCCTCACACACACTGATCTTGACAAGgtattgtctt ... ttttgttcagGAAACTGAGGAGATGATTGCAGATGTTCTGGGA
EST: gi|298184021|gb|HO029234.1|HO029234
EST:     GTATAGCATGTAATGACCATGTGGCCCTCACACACACTGATCTTGACAAG                         GAAACTGAGGAGATGATTGCAGAT
genomic: GTATAGCATGTAATGACCATGTGGCCCTCACACACACTGATCTTGACAAGgtattgtctt ... ttttgttcagGAAACTGAGGAGATGATTGCAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatccgatgattctgtcttgctttattattattcattgtgaaatttttgttcagGAAACTGAGGAGATGATTGCAGATGTTCTGGGAGTAGAAGTTTTCAGGCAGACAGTTGCCGGTAATATTCTTGTGGGCAGTTACTGTGTATTCTCCAACA
 ctctaat  putative branch site (score: 3)
                                            tttttgttc  putative PPT
                      tttattattattcatt  TA-rich tract