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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagcttcccaggctcccgcatgacaaatctgtcacataaatgatgtcgttacctgatacaaaacaacagttggtaattatgtttctttacatgtatttttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA

Basic information

species Glycine max
transcript GLYMA18G00920.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G00920.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g41010.4 (Oryza sativa), 3'ss of exon 8
gtaagtagcttcccaggctcccgcatgacaaatctgtcacataaatgatgtcgttacctgatacaaaacaacagttggtaattatgttt---ctttacatgta-tttttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA
            |||   | |   | |  |    |||||| ||           | | ||  |           ||  ||||| | | |   |||||||| || | |||| |  |||| | ||||||||| || || || ||||||||||| ||||| || |||||||||||||| ||| | || || || ||| | |  | ||| |  ||||| ||
------------ccacattgc-ataagttatgcgtgtcacttag----cactagttcttgtaatggctttgtcctttttaattctatataatctttacatctaatatttcatggcagAACCAAAGATGCCAGAAGGTAGTTGGAAGTGCGAGAAGTGCAATAACATAAACTATCCATTCCGCACAAAATGTAACCGTCCAAGTTGCGAGGCTGAAAA

upper sequence: GLYMA18G00920.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtagcttcccaggctcccgcatgacaaatctgtcacataaatgatgtcgttacctgatacaaaacaacagttggtaattatgtt--tctttacatgtatttttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA
                                         | | |  | |  | || || | | |        || | | | |  ||  |  | ||||  |||  |   |||||| |||||||||||||| ||||| |||||||| || ||||||| ||||||||||||||| ||||||||||||||||| |||||||| ||||| || || ||
----------------------------------------gtgagttcttttttaacttgctgctattattggctttgcattaactttgatgctaacata-attcatttattcagAACAAAAGATGCCTGATGGAAGTTGGAAGTGTGAGAAGTGTAGCAACATAAACTATCCCTTCAGAACCAAGTGCAATAGACAGAACTGTGGGGCCGATAA
















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|192312177|gb|FK005662.1|FK005662
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|254326113|gb|GR840705.1|GR840705
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|192324353|gb|FK015704.1|FK015704
EST:     GGCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GGCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|208241879|gb|GE041073.1|GE041073
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTG
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTG
EST: gi|31458741|gb|CD400769.1|CD400769
EST:     GCCTCAAAGTCGGACTAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|58022050|gb|CX708791.1|CX708791
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|14008855|gb|BG725459.1|BG725459
EST:     GTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|4289526|gb|AI441488.1|AI441488
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
EST: gi|192312176|gb|FK005661.1|FK005661
EST:     GCCTCAAAGTCGGACAAAAATTCTA                         AGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA
genomic: GCCTCAAAGTCGGACAAAAATTCTAgtaagtagct ... ttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatacaaaacaacagttggtaattatgtttctttacatgtatttttcctttcagAGCAAAAGATGCCTGAGGGAAGCTGGAAGTGCGAAAAGTGTAACAACATAAACTATCCTTTCAGAACCAAGTGCAACAGACAGAATTGTGGTGCTGACAA
 acctgat  putative branch site (score: 4)
                                      tgtatttttcctttc  putative PPT
                    taattatgtttcttta  TA-rich tract