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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttaggttttgcgtcttaatcttgaagttaggtcttttcccagttgttttcttatatcattcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG

Basic information

species Glycine max
transcript GLYMA17G07290.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g08120.1 (Oryza sativa), 3'ss of exon 6
gtaagtttaggttttgcgtcttaatcttgaagttaggtcttttcccagttgttttcttatat-cattcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG
||||| |||  |  |       | | ||    ||   |  |||       ||| |   ||||   |||      |||||||||| ||||||||||| || |||||||||||   |||| | || |||||||| || |||||  ||||||| ||    ||  | |||||| |||| |
gtaagattatttcctattcagcatttttcttctttttttcttttgtttgagttctaacatatatgttctgtcccagATCCTTGGAAGTGGTATGTCTAATAAGATGTGGGATATTCTTGTCGAACATGCAAAGACTTGTGTCTTAAGTGGAAAATATTACATATATTATTCAGACG

upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G451882_T01 (Zea mays), 3'ss of exon 6
------------gtaagtttaggttttgcgtcttaatcttgaagttaggtcttt-----tcccagt---tgttttcttatatcattcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG
            ||  || |    ||  | |  || | ||  | ||   | |||     |  ||||   ||  |  | ||    |||     ||||| ||||| ||||||||||| ||||| |||||||| || ||| | || |||||||| || |||||  ||||||||||    ||  | || ||| | || |
gtaagttcgtatgtgggtgtgttattaacttactattattatactttcatttttatgtgtttcagtttatgactattaatgctcttctgtgatagATACTTGGAAGTGGTATGTCCAACAAAATGTGGGATGCCCTTGTGGAACATGCAAAGACTTGTGTCTTAAGTGGGAAATATTACATATACTATTCTGATG

upper sequence: GLYMA17G07290.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0052g01380.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtttaggttttgcgtcttaatcttgaagttaggtcttttcccagttgttttct--tatatcattcaa----ctgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG
||||||  |   |||   |  | |  | ||| |    |  | |     |||||| ||  |||||  |||      ||||||||||| || ||||| |||||||| |||||||||||||||||| |||| |||||||| || ||     | ||||| ||| |||||||||||||| | || |
gtaagtgcaatatttagttgctgaattagaaatacaatgatctaatc-ttgtttcctgatatatttttctggttgctgtagATCCTGGGAAGTGGCATGTCAAATAAGATGTGGGAGGCTCTTATAGAGCATGCAAAGACTTGCACCATGAGTGGAAAGTTCTATGTTTATTATTCTGATG

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|208076488|gb|GD874367.1|GD874367
EST:     TTGAAGACTTTCTTCGGCTTGTGGTTAAAGATCAACAAAGATTGCGGAAT                         ATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCAT
genomic: TTGAAGACTTTCTTCGGCTTGTGGTTAAAGATCAACAAAGATTGCGGAATgtaagtttag ... tcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatcttgaagttaggtcttttcccagttgttttcttatatcattcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG
 tcttaat  putative branch site (score: 3)
                               ttttcttatatcatt  TA-rich tract