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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctttcacgtttctgcaccttgcatgttgcatgtcatctatcagtattctataatgtattttttttttacgagttcgcttaatggtcttcaactcttgtgcagTTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTGGTGGCGGCTATATTTGGCATGAATATCCCATATACTTGGAACGAAAACC

Basic information

species Glycine max
transcript GLYMA20G35260.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G35260.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv05s0020g04720.t01 (Vitis vinifera), 3'ss of exon 9
---------------------gtgctttcacgtttctgcaccttgcatgttgcatgtcatctatcagtattctataatgtattttttttttacgagttcgcttaatggtcttcaactct-tg--tgcagTTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTGGTGGCGGCTATATTTGGCATGAATATCCCATATACTTGGAACGAAAACC
                      || |  ||| |  ||    ||  |||  |  | ||| |  |    ||||  | | | | | |   |||      ||   || || || ||| ||  | ||  ||||||||||||||||| | || |||||||| |||||| ||||  |||| ||||||||||| |  ||||||||||||||||| || ||||||||||| ||  | |
gtgcttgtatcattctctcttatg-taacacatcgctattgctgtcattgtctaagtccttcaatcatattgga-agtttttatagatttagtagatttattttattgttttccaccttatggctgcagTTAGAGCTCTTTTTAAGTTCTGGAACAGTTTGTTTATCCATCTATTCTTTGGTGGCTGGAATATTTGGCATGAATATTCCCTATACTTGGAATGATGATC
















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|51335317|gb|CO979183.1|CO979183
EST:     CTTGACAACCATCGTAATCAGCTGATTCAG                         TTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTG
genomic: CTTGACAACCATCGTAATCAGCTGATTCAGgtgctttcac ... tcttgtgcagTTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTG
EST: gi|151407766|gb|EV277581.1|EV277581
EST:     CTTGACAACCATCGTAATCAGCTGATTCAG                         TTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTG
genomic: CTTGACAACCATCGTAATCAGCTGATTCAGgtgctttcac ... tcttgtgcagTTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTG
EST: gi|58023586|gb|CX710327.1|CX710327
EST:     CTTGACAACCATCGTAATCAGCTGATTCAG                         TTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTG
genomic: CTTGACAACCATCGTAATCAGCTGATTCAGgtgctttcac ... tcttgtgcagTTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctataatgtattttttttttacgagttcgcttaatggtcttcaactcttgtgcagTTAGAGCTCTTTCTTAGCTCTGGAACTGTTTGTCTATCTTTCTACTCTTTGGTGGCGGCTATATTTGGCATGAATATCCCATATACTTGGAACGAAAACC
                            gcttaat  putative branch site (score: 4)
                                            ctcttgt  putative PPT
     atgtatttttttttta  TA-rich tract