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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtattcctatacttttactctctcacataaagtgaaattttataccttcttttcttccaagcctgcatattttcttatttatatggtatcgtgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG

Basic information

species Glycine max
transcript GLYMA17G32030.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G32030.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g40030.1 (Oryza sativa), 3'ss of exon 5
gttgtattcctatacttttactctctcacataaagtgaaattttataccttcttttcttccaagcctgcatattttcttatttatatggtatcgtgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG
                  ||   | |||  |  |||        ||||  ||   |  |   |  || ||||  ||  ||   |    || | || |  |||||   || ||| |||||||||| |||||||| ||||| ||||||||||| |
-----------------gtaacatttcattttcagttttgccacatacaatcccattct---aaactacatagctttctaacca-gcagttttgttttgtttta---gGAAAATCTAGTGGTCTAAATAGCTTCGGCCTGATGTGGTGCAACG

upper sequence: GLYMA17G32030.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G020976_T01 (Zea mays), 3'ss of exon 5
gttgtattcctatacttttactctctcacataaagtgaaattttataccttcttttcttccaagcctgcatattttcttatttatatggtatcgtgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG
      |     || |||   | ||  ||||| | ||                 |||||||| |     | || ||  |  ||| ||| | |  | ||||   || ||| ||| ||||||| ||||||||||||||||| |||||||||||||
-----gtaaaagtagtttctttttccaacatataatg-----------------ttcttccacgttacaaaatctttctgattagatgttctttt-tcttcccat-agGAAAATCTAGTGGCCTTAATAGCTTTGGCCTGATGTGGTGCAATG

upper sequence: GLYMA17G32030.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 5
gttgtattcctatacttttactctctcacataa-agtgaaattttataccttcttttcttccaagcctgcatattttcttatttatatggtatcgtgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG
                             | |  |||    ||||  | | | |  | |||       | | |   ||||  | ||  | | |  | | | ||    ||| ||| ||||||| || |||||||||||||| |||||||||||||
---------------------------gtaaagcagttcctttttccaacatatagtgttctttcatcgtacaaaatctttctgatcagatgttctttttcttccatagGAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATG

upper sequence: GLYMA17G32030.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 5
gttgtattcctatacttttactctctcacataaagtgaaattttataccttcttttcttccaagcctgcatattttcttatttatatggtatcgtgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG
|| | ||| | ||  ||||| | | |    ||||   ||| ||   |      |  | ||  ||   || |  ||||||  ||| ||| |    | |  |||| ||||||||| ||||||| |||||||||||||||||||||||||| ||||
gtagaatttccat--ttttattttattttttaaa---aaacttccaa------tgacatctcagta-gcttgatttctttcttagatgctgatattttcttttctcagGGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATG

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|151409838|gb|EV279646.1|EV279646
EST:     CATGTCGAACATCGCCACAGCAATATATCTTGCAACCATAGCCCGCATTG                         GGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG
genomic: CATGTCGAACATCGCCACAGCAATATATCTTGCAACCATAGCCCGCATTGgttgtattcc ... tttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG
EST: gi|17022709|gb|BM093743.1|BM093743
EST:     CATGTCGAACATCGCCACAGCAATATATCTTGCAACCATAGCCCGCATTG                         GGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG
genomic: CATGTCGAACATCGCCACAGCAATATATCTTGCAACCATAGCCCGCATTGgttgtattcc ... tttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttccaagcctgcatattttcttatttatatggtatcgtgtctttttatcagGGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATG
                                           tctttttatc  CT-rich tract
                atattttcttatttat  TA-rich tract