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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtatctaatttgccgtgtttatgtttttctgttatcttattatatttttcatcaaatgatttttttatttaattattttttggcagGCCTTGGTCCTACCATAATGCAGGCTCCTGGCCAACACTGCTCTGGCAG

Basic information

species Glycine max
transcript GLYMA08G15220.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G15220.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g33490.1 (Oryza sativa), 3'ss of exon 4
gtactgtatctaatttgccgtgtttatgtttttctgttatcttattatatttttcatcaaatgatttttttatttaattattttttggcagGCCTTGGTCCTACCATAATGCAGGCTCCTGGCCAACACTGCTCTGGCAG
        |      |    |  | ||||    |   ||  |||   | |||    |  |     ||| || |||   | |||    ||||| ||||||| |||||||||| ||| ||||||||||||||  | ||||||
-------gtgagccctatgattatcatgtaacccgtgtaatttagactgtttggatttcatcttatttgttttttttctctttcaatgcagGGCTTGGTCTTACCATAATGGAGGTTCCTGGCCAACACTATTGTGGCAG

upper sequence: GLYMA08G15220.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0074g00720.t01 (Vitis vinifera), 3'ss of exon 6
gtactgtatctaatttgccgtgtttatgtttttctgttatcttattatatttttcatcaaatgattttt------ttatttaattattttttg--gcagGCCTTGGTCCTACCATAATGCAGGCTCCTGGCCAACACTGCTCTGGCAG
|||     || |  || |  ||  |||| | |||  || | || || |   ||| ||   ||  ||||        ||||  |||   |||||  |||||||||||||||||||||||||||| |||||||||||  |||||||||||
gtaagaattccatcttac--tgcctatgctattcctttttttttttttccctttgatttgattgttttcatgtcactattggattgcattttgatgcagGCCTTGGTCCTACCATAATGCAGGTTCCTGGCCAACTTTGCTCTGGCAG
















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|58021713|gb|CX708454.1|CX708454
EST:     CTTGATGGTCAGGAGTGGCAGATAATCACAGGCAGTGATCCTAAGAACAC                         GCCTTGGTCCTACCATAATGCAGGCTCCTGGCCAACACTGCTCTGGCAG
genomic: CTTGATGGTCAGGAGTGGCAGATAATCACAGGCAGTGATCCTAAGAACACgtactgtatc ... tttttggcagGCCTTGGTCCTACCATAATGCAGGCTCCTGGCCAACACTGCTCTGGCAG
EST: gi|298180283|gb|HO021894.1|HO021894
EST:     CTTGATGGTCAGGAGTGGCAGATAATCACAGGCAGTAATCCTAAGAACAC                         GCCTTGGTCTTACCATAATGCA
genomic: CTTGATGGTCAGGAGTGGCAGATAATCACAGGCAGTGATCCTAAGAACACgtactgtatc ... tttttggcagGCCTTGGTCCTACCATAATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcttattatatttttcatcaaatgatttttttatttaattattttttggcagGCCTTGGTCCTACCATAATGCAGGCTCCTGGCCAACACTGCTCTGGCAG
                                   atttaat  putative branch site (score: 4)
                                         ttatttttt  CT-rich tract
     ttattatatttttcat  TA-rich tract