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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcgaatcttcagtgatgactaactttgtttatgctgtttgttttattaagaaattttgtatcttctagttaacatcagaaactctgatcgattgacatttgaatcttgttggctgcagTTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACTTTTGTTGGAATAGTTTTTGGCTTCTTTATAGGAGTATCATTTCCAGCATTG

Basic information

species Glycine max
transcript GLYMA08G14040.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 2
gtcgaatcttcagtgatgactaactttgtttatgctgtttgttttattaagaaattttgtatcttctagttaacatcagaaactctgatcgattgacatttgaatcttgttggctgcagTTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACTTTTGTTGGAATAGTTTTTGGCTTCTTTATAGGAGTATCATTTCCAGCATTG
      ||||     |  |  | ||   ||| | |      ||||  | ||| || | ||    || | | ||  | | |             ||||  ||   |||| |||| ||||||         |||||||||| ||| | ||||||||||||||| |||| || ||||||| | |||||||||||  | |||||| |||| |||||| | |||
-----ttcttttagtagaaagagctcattttttccctaggattttgcttagatatat-gtggtatcaaatcaattttata-------------tgacggtttcctcttcttggttgcagTGTAATTGTTAGAAAACCAAATGAGACTATGAGGCTTATTGTAACAATTTCTGTTGGAGTTGTTTTTGGCTTTCTAATAGGAATATCTTTTCCAACTTTG
















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|10709653|gb|BF009377.1|BF009377
EST:     TGAGCATTCAATTAGAAAAGCTTGGATATTATGGGGATCAGTTCTCGAAG                         TTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACATA
genomic: TGAGCATTCAATTAGAAAAGCTTGGATATTATGGGGATCAGTTCTCGAAGgtcgaatctt ... ttggctgcagTTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACTTT
EST: gi|193384282|gb|FK349308.1|FK349308
EST:     TGAGCATTCAATTAGAAAAGCTTGGATATTATGGGGATCAGTTCTCGAAG                         TTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACTTT
genomic: TGAGCATTCAATTAGAAAAGCTTGGATATTATGGGGATCAGTTCTCGAAGgtcgaatctt ... ttggctgcagTTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACTTT
EST: gi|37996138|gb|CF807727.1|CF807727
EST:     TGAGCATTCAATTAGAAAAGCTTGGATATTATGGGGATCAGTTCTCGAAG                         TTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACTTT
genomic: TGAGCATTCAATTAGAAAAGCTTGGATATTATGGGGATCAGTTCTCGAAGgtcgaatctt ... ttggctgcagTTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctagttaacatcagaaactctgatcgattgacatttgaatcttgttggctgcagTTCTTCCAACAGAAAACCAAGTGATAGTATGAGGCTTATTGTGACAACTTTTGTTGGAATAGTTTTTGGCTTCTTTATAGGAGTATCATTTCCAGCATTG
                          gattgac  putative branch site (score: 3)
                                        tcttgtt  putative PPT
                                 atttgaat  TA-rich tract