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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatttacctttttactgctctttctagtctctgatttctattagtgttaatctatgttttagatttttagtagctttgttatgtcattttttctacatatttttttagtggaagcttatttgtaatggccgtacttttgaattttacatttaatcaaaatcttttcaattctaattttcagGGTGTTCTCCTTTACGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAGGGCAATTGCAAGTAATATAGATGCAAATTTCCTAAAG

Basic information

species Glycine max
transcript GLYMA04G03180.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G03180.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g13090.t01 (Vitis vinifera), 3'ss of exon 4
gtgatttacctttttactgctctttctagtctctgatttctattagtgttaatctatgttttagatttttagtagctttgttatgtcattttttctacatatttttttagtggaagcttatttgtaatggccgtacttttgaattttacattt------aatcaaaa--tcttttcaattctaatttt---cagGGTGTTCTCCTTTACGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAGGGCAATTGCAAGTAATATAGATGCAAATTTCCTAAAG
                                                 | ||  ||  ||||  || |||||   | |||    |  | | |||| |||  |   ||     |  | |  | ||  |||    |    || ||||||  |||      ||| ||||  ||| || |||| || ||||   ||||||||||| ||||| ||||||||||||||||| || ||||| |||||||| |||||||| |||||||||||||| || ||| | |||
------------------------------------------------gtgattcatactttaatttgttagttattctgt---atggtctgttctgcattgtcaattgagttagccatcctagtggtggtaacatgaatggattttatttttttccttaattaaaaagtctcttaaattttatttttttgcagGGTGTTCTTCTTTATGGGCCTCCTGGTACTGGGAAGACATTATTAGCTAGAGCAATTGCCAGTAATATAGATGCCAACTTCTTGAAG
















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|151405441|gb|EV275255.1|EV275255
EST:     TCTAATGAATCCTGAGCTCTTCCTTCGAGTTGGAATTAAACCTCCCAAAG                         GGTGTTCTCCTTTACGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAG
genomic: TCTAATGAATCCTGAGCTCTTCCTTCGAGTTGGAATTAAACCTCC-AAAGgtgatttacc ... taattttcagGGTGTTCTCCTTTACGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAG
EST: gi|208336740|gb|GE136012.1|GE136012
EST:     CGAGTTGGAATTAAACCTCCAAAG                         GGTGTTCTCCTTTACGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAGG
genomic: CGAGTTGGAATTAAACCTCCAAAGgtgatttacc ... taattttcagGGTGTTCTCCTTTACGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggccgtacttttgaattttacatttaatcaaaatcttttcaattctaattttcagGGTGTTCTCCTTTACGGGCCTCCTGGTACTGGTAAAACATTGTTAGCTAGGGCAATTGCAAGTAATATAGATGCAAATTTCCTAAAG
                                          ttctaat  putative branch site (score: 2)
                                                ttttc  CT-rich tract
             aattttacatttaatc  TA-rich tract