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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttaggttttgcatcttaatcttgaagttaggcctttttccagttgttttcttatatcattcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG

Basic information

species Glycine max
transcript GLYMA13G01160.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G01160.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g08120.1 (Oryza sativa), 3'ss of exon 6
gtaagtttaggttttgcatcttaatcttgaagttaggcctttttccagttgttttcttatat-cattcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG
||||| |||  |  |       | | ||    ||      ||||      ||| |   ||||   |||      |||||||||| ||||||||||| || |||||||||||   |||| | || |||||||| || |||||  ||||||| ||    ||  | |||||| |||| |
gtaagattatttcctattcagcatttttcttctttttttcttttgtttgagttctaacatatatgttctgtcccagATCCTTGGAAGTGGTATGTCTAATAAGATGTGGGATATTCTTGTCGAACATGCAAAGACTTGTGTCTTAAGTGGAAAATATTACATATATTATTCAGACG

upper sequence: GLYMA13G01160.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G451882_T01 (Zea mays), 3'ss of exon 6
------------gtaagtttaggttttgcatcttaatcttgaagttaggccttt-----ttccagt---tgttttcttatatcattcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG
            ||  || |    ||  | |  || | ||  | ||     |||     || ||||   ||  |  | ||    |||     ||||| ||||| ||||||||||| ||||| |||||||| || ||| | || |||||||| || |||||  ||||||||||    ||  | || ||| | || |
gtaagttcgtatgtgggtgtgttattaacttactattattatactttcatttttatgtgtttcagtttatgactattaatgctcttctgtgatagATACTTGGAAGTGGTATGTCCAACAAAATGTGGGATGCCCTTGTGGAACATGCAAAGACTTGTGTCTTAAGTGGGAAATATTACATATACTATTCTGATG

upper sequence: GLYMA13G01160.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0052g01380.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtttaggttttgcatcttaatcttgaagttaggcctttttccagttgttttct--tatatcattcaa----ctgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCATGCAAAAACATGTGTTCTAAGTGGGAAGCTCTATGTTTATTATCCAGAAG
||||||  |   |||   |  | |  | ||| | |      | |    |||||| ||  |||||  |||      ||||||||||| || ||||| |||||||| |||||||||||||||||| |||| |||||||| || ||     | ||||| ||| |||||||||||||| | || |
gtaagtgcaatatttagttgctgaattagaaat-acaatgatctaatcttgtttcctgatatatttttctggttgctgtagATCCTGGGAAGTGGCATGTCAAATAAGATGTGGGAGGCTCTTATAGAGCATGCAAAGACTTGCACCATGAGTGGAAAGTTCTATGTTTATTATTCTGATG

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|208190501|gb|GD992661.1|GD992661
EST:     TTGAAGAATTTCTTCGGCTTGTGGTTAAAGATCAACAAAAATTGCGGAAT                         ATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCAT
genomic: TTGAAGAATTTCTTCGGCTTGTGGTTAAAGATCAACAAAAATTGCGGAATgtaagtttag ... tcaactgtagATCCTTGGGAGTGGTATGTCAAACAAGATGTGGGAGGCTCTTTTAGACCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

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