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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgcatgaggtgttttatttttcagttatcaaggaatcttttactggtatgatagattttatcatatgaacttcattctgaaaacaaggtatattcagGTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTGATGG

Basic information

species Glycine max
transcript GLYMA06G01280.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g29390.1 (Oryza sativa), 3'ss of exon 5
acttgcatgaggtgttttatttttcagttatcaaggaatcttttactggtatgatagattttatcatatgaacttcattctgaaaacaagg-----tatattcagGTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTGATGG
     ||  || ||    ||   | | |  |    || | |  |      |    || |   ||  |    ||||   |   |  | |        ||  |||||||  |||| || ||||||||||||||||||||||||||||| || ||||| || |||||  |
-----cagcagatgaggcataagtgaatattgttagattttagtttcttcacatgagctcccatgcttaccactttggtacaatgatacatttttctaccttcagGTTTTACAAGAGAAAGGCATTCATATTTGGGATGGCAATGCTTCGAGAGAGTATCTTGACAG

upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 4
---acttgcatgaggtgttttatttttcagttatcaaggaatcttttactggtatgatagattttatcatatgaacttcattctgaaaacaaggtatatt--cagGTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTGATGG------------------------
   | |  |     |   |||||||   |||  | ||       || |     |  |   ||| ||    | ||| |  ||| |  |   | | |||      ||||||| ||| | |||| ||||||||| ||||||||||||||||||||||| ||||||||  |                        
attattgtctcagagaaatttatttacaagtccttaa-----tattaaaaaaaaaaactaattatacttgaggaaatggattatagattgatgttattgcaatagGTGCTGCAGAAGAAAGACATTCATATATGGGATGGCAATGCATCCAGAGAGTACCTTGACAGGCAACTACTTGGCTATTGGAATCT

upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 6
acttgcatgaggtgttttatttttcagttatcaaggaatcttttactggtatgatagattttatcatatgaacttcattctgaaaacaaggtatatt---cagGTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTGATGG
      ||    || |  |  ||     |        |||   ||  | | ||| |         |  || || ||||||| |||     ||||  |   ||||| ||||||||||| || |||||||| |||||||||||||||||||| || ||||||||| |
-tccaaataccttggtcaagattct--cttctcttccatccagtatagatgtgaaattcagatctaagtgtacatcattctaaaatgtttgtattgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG

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|192311470|gb|FK005201.1|FK005201
EST:     GGGTTGTTGAAGAGCTTCTTTGGTTTATCAGTGGCTCAACAAATGCCAAG                         GTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAA
genomic: GGGTTGTTGAAGAGCTTCTTTGGTTTATCAGTGGCTCAACAAATGCCAAGgtaatgatat ... gtatattcagGTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAA
EST: gi|192311469|gb|FK005200.1|FK005200
EST:     GGGTTGTTGAAGAGCTTCTTTGGTTTATCAGTGGCTCAACAAATGCCAAG                         GTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAA
genomic: GGGTTGTTGAAGAGCTTCTTTGGTTTATCAGTGGCTCAACAAATGCCAAGgtaatgatat ... gtatattcagGTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggtatgatagattttatcatatgaacttcattctgaaaacaaggtatattcagGTGCTACAGGAAAAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTGATGG
        atagattttatcatat  TA-rich tract