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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaagtctttatccatgtttggtggttttaattgtctcttactattgaattaatatgaacattataactgcacattagattgttttctaacttcaaaattcctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCGGACAACCGGCTCTGTTGCCATG

Basic information

species Glycine max
transcript GLYMA02G07910.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G07910.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G381744_T01 (Zea mays), 3'ss of exon 6
gtatgtgaagtctttatccatgtttggtggttttaattgtctcttactattgaattaatatgaacattataactgcacattagattgttttctaacttcaaaattcctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCGGACAACCGGCTCTGTTGCCATG
               ||   ||| ||   ||| || || ||   || |   || |  ||  |   ||      ||  |  |   ||    | ||  |    |  | ||| ||  ||||| |||||||||||||||||||| |||||||||||| |  | || ||||| || || ||  ||||||| || 
---------------attattgtatgtatgttata-ttctccaatattggggactgtatgagtgtataggtgttgacctctttgttagcctttacttattgatgttctgtttgcagGCTGATGGTTCTGAAAATCAGCTCGAAGTTTGAACTAAGAAGGTTCTGCCGTACTACTGGGGCTGTTGCAATT

upper sequence: GLYMA02G07910.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G083095_T03 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------------------gtatgtgaagtctttatccatgtttggtggttttaat---tgtctcttactatt----gaattaatatgaacattataactgcacattagattgttttctaacttcaaaattcctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCGGACAACCGGCTCTGTTGCCATG
                                                                        |   ||||   ||  |  |   | |   |  ||| |   ||| |  || | |      ||||||       ||  | |  |  | ||    |      ||  | |  |  |  || ||  ||||| |||||||||||||||||||| |||||||||||  |  |||| ||||| || || ||  ||||||| || 
gtgagtttttttgcttttcgtatgtgttctgaactgaataggttatctgaattttctgtgcagtattgctcattgttgaaaatttcttttagactagagagagttattgtatgtgttatattttctccaaaattaaggattgtatggtcatcgacctttttgatagccattacttactgatgttatgtttgcagGCTGATGGTTCTGAAAATCAGCTCGAAGTTTGAACTGAGAAGATTCTGCCGTACTACTGGGGCTGTTGCAATT

upper sequence: GLYMA02G07910.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G03960.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgtgaagtctttatccatgtttggtggttttaattgtctcttactattgaattaatatgaacattataactgcacattagattgttttctaacttcaaaattcctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCGGACAACCGGCTCTGTTGCC-ATG
                         |   || |  |   | || |  |||  | |     |    ||| | | ||          ||  |||| |   |  | ||  |  |   ||| | |||||  |||||||||||||||||||||||||  | || |||||||| ||| | ||  |||| ||| || 
-------------------------gtatgtgtagaccatatcatgttat--actcgtcttagctattgttattgt--------ctgcattctgataccccattttttcttggcagGATAATGGTATTGAAAATCAGCTCAAAGTTTGAACTGAGGCGTTTTTGCCGTACAGCGGGGGCTGTCGCCCAT-

upper sequence: GLYMA02G07910.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g07460.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtgaagtctttatccatgtttggtggttttaattgtctcttactattgaattaatatgaacattataactgcacattagattgttttctaacttcaaaattcctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCGGACAACCGGCTCTGTTGCCATG
     || |   ||| | ||   |    || |  |  | ||    |  |   |||  ||        |||  |     || |  |      | |  ||     ||| |||||  || ||||||||| ||||||||||||||||||||||||| || ||||||||||| ||||| ||  |||||||  | 
----ttgcatcttttcttca---tcaagggatgca--tatccaagaagaac-aatctatgcatgtggtatggcgatgtatgaactgaa---ccagttt---gtttcttgcttgcagACTTATGGTTTTGAAAATCAGCTCAAAGTTTGAACTGCGGCGATTTTGCCGTACAACTGGAGCTGTTGCAGTT

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|298198017|gb|HO039556.1|HO039556
EST:     GGAGCAGTAGGAGAAATGGCTTTGCATTTCTGTGAGCGTTACAA                         GCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCG
genomic: GGAGCAGTAGGAGAAATGGCTTTGCATTTCTGTGAGCGTTACAAgtatgtgaag ... ctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCG
EST: gi|151397877|gb|EV267750.1|EV267750
EST:     GGAGAAATGGCTTTGCATTTCTGTGAGCGTTACAA                         GCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCG
genomic: GGAGAAATGGCTTTGCATTTCTGTGAGCGTTACAAgtatgtgaag ... ctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCG
EST: gi|16997151|gb|BM086523.1|BM086523
EST:     AGTGGAGGAGCAGTAGGAGAAATGGCTTTGCATTTCTGTGAGCGTTACAA                         GCTTATGGTTCTGAAAATCAGCTCA
genomic: AGTGGAGGAGCAGTAGGAGAAATGGCTTTGCATTTCTGTGAGCGTTACAAgtatgtgaag ... ctgcttttagGCTTATGGTTCTGAAAATCAGCTCA
EST: gi|254342218|gb|GR853355.1|GR853355
EST:     AGTGGAGGAGCAGTAGGAGAAATGGCTTTGCATTTCTGTGAGCGTTACAA                         GCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCG
genomic: AGTGGAGGAGCAGTAGGAGAAATGGCTTTGCATTTCTGTGAGCGTTACAAgtatgtgaag ... ctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacattataactgcacattagattgttttctaacttcaaaattcctgcttttagGCTTATGGTTCTGAAAATCAGCTCAAAGTTTGAACTACGTCGATTTTGCCGGACAACCGGCTCTGTTGCCATG
                            ttctaac  putative branch site (score: 1)
                                          ttcctgctttt  putative PPT
                                   ttcaaaatt  TA-rich tract