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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttgtaaccttatttatattgcttttgtttttaatatgaatggatttgctcacaaaatgttccatgtcttgtctatgcggtttggtgaagatgtttagaattagaagcaaagcaaccttttgtttttgcaattttggattactgtataattaccacaacttgattttggccttttctgcagATGTCTCTTGTTTCCAGGGTCTGTTGTTCTGCCCAGAGGCAGCTTCTTTGTTGCTTCATAACTTCTGCATTTATCACATTGATGCTCCGGGACATGAG

Basic information

species Glycine max
transcript GLYMA20G36650.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36650.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0030g01790.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtttgtaaccttatttatattgcttttgtttttaatatgaatggatttgctcacaaaatgttccatgtcttgtctatgcggtttggtgaagatgtttagaattagaagcaaagcaaccttttgtttttgcaattttggattactgtataattaccacaacttgattttggccttttctgcagATGTCTCTTGTTTCCAGGGTCTGTTGTTCTGCCCAGAGGCAGCTTCTTTGTTGCTTCATAACTTCTGCATTTATCACATTGATGCTCCGGGACATGAG
                                                                     |||  |   | |  | ||| |||  | |||| || | |||             ||| ||       |   ||  ||| | | |   || |     ||| || |||  |||  | ||||  | |||||||| || || || || || |||||||| |||||||||||| |||||||||||||||||||||| |||||||||||||| |||||||||
---------------------------------------------------------------------tgtgctaatt-tatgtttttgtg--ggtgttgagcaatagtg----------ttttagtccaaatgagcatgtcttaatatctgggtatctt--tttgcttctgggattt--tacagACATGTCTTGTTTTCAAGGGCTCTTCTTTTGCCCAGATGCAGCTTCTTTGCTGCTTCATAACTTCTGCATTTACCACATTGATGCTCCTGGACATGAG
















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|192297072|gb|FG992008.1|FG992008
EST:     GGATCGAGAAAAACCCGCTCTAATAACCTACCCAGACGTGGCTCTCAATT                         ATGTCTCTTGTTTCCAGGGTCTGTTGTTCTGCCCAGAGGCAGCTTCTTTGT
genomic: GGATCGAGAAAAACCCGCTCTAATAACCTACCCAGACGTGGCTCTCAATTgtaagtttgt ... ttttctgcagATGTCTCTTGTTTCCAGGGTCTGTTGTTCTGCCCAGAGGCAGCTTCTTTGT
EST: gi|18039748|gb|BM308042.1|BM308042
EST:     GGATCGAGAAAAACCCGCTCTAATAACCTACCCAGACGTGGCTCTCAATT                         ATGTCTCTTGTTTCCAGGGTCTGTTGTTCTGCCCAGAGGCAGCTTCTTTGT
genomic: GGATCGAGAAAAACCCGCTCTAATAACCTACCCAGACGTGGCTCTCAATTgtaagtttgt ... ttttctgcagATGTCTCTTGTTTCCAGGGTCTGTTGTTCTGCCCAGAGGCAGCTTCTTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcaattttggattactgtataattaccacaacttgattttggccttttctgcagATGTCTCTTGTTTCCAGGGTCTGTTGTTCTGCCCAGAGGCAGCTTCTTTGTTGCTTCATAACTTCTGCATTTATCACATTGATGCTCCGGGACATGAG
                               acttgat  putative branch site (score: 5)
                                     ttttggccttttct  CT-rich tract
           attactgtataatta  TA-rich tract