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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgctatctcaagatccttgatttctctcttgtttccttcccatttcttcctttaccaccttcctctatcccatttctcacccaaagatgcttaaatattctgacatgtgttgctttttagGTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACATTGGGTGTATGAAATCTGGACCTGTCCTTTCTAGAAA

Basic information

species Glycine max
transcript GLYMA04G43340.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G43340.2 (Glycine max), 3'ss of exon 7
lower sequence: EFJ10043 (Selaginella moellendorffii), 3'ss of exon 7
gtacatgctatctcaagatccttgatttctctcttgtttccttcccatttcttcctttaccaccttcctctatcccatttctc-acccaaagatgcttaaatattctgacatgtgttgctttttagGTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACATTGGGTGTATGAAATCTGGACCTGTCCTTTCTAGAAA
                                                                |    ||  |  ||    | | |   |  |   |   |  |||      ||||| |||  |||  |  |  |    || || ||||| ||| |||| || ||  | | ||||||||| |||||||| ||||||||||||||  ||  |||
---------------------------------------------------------------gtaagcctgacaaatgaaacgagctgcaagtttattctttctctctttattgttg-tttccagGCATGCTCACTGTCACTCTGGCTCGGCATAGATCCAAGCCTCGCGCCTACATTGGATGTATGAAGTCTGGACCTGTCCTGGCTCAAAA
















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|23052841|gb|BU577332.1|BU577332
EST:     GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAG                         GTGTCTTGGCAACAACCCT
genomic: GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAGgtacatgcta ... tgctttttagGTGTCTTGGCAACAACCCT
EST: gi|298180725|gb|HO022164.1|HO022164
EST:     GGACGCTGATTTCTATGTCAAGGTGGATGTTGATGTCCATGTCAATTTAG                         GTGTCTTGCCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
genomic: GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAGgtacatgcta ... tgctttttagGTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
EST: gi|8827480|gb|BE211210.1|BE211210
EST:     GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAG                         GTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
genomic: GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAGgtacatgcta ... tgctttttagGTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
EST: gi|151395197|gb|EV265068.1|EV265068
EST:     GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAC                         GTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
genomic: GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAGgtacatgcta ... tgctttttagGTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
EST: gi|51337140|gb|CO981006.1|CO981006
EST:     GATGATGATGTCCATGTCAATTTAG                         GTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
genomic: GATGATGATGTCCATGTCAATTTAGgtacatgcta ... tgctttttagGTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
EST: gi|151412778|gb|EV282590.1|EV282590
EST:     GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAG                         GTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA
genomic: GGACGCTGATTTCTATGTCAAGGTGGATGATGATGTCCATGTCAATTTAGgtacatgcta ... tgctttttagGTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcccatttctcacccaaagatgcttaaatattctgacatgtgttgctttttagGTGTCTTGGCAACAACCCTTGCTCGTCATCGATCAAAACCCAGGGTCTACATTGGGTGTATGAAATCTGGACCTGTCCTTTCTAGAAA
                                ttctgac  putative branch site (score: 2)
                                            ttgcttttt  putative PPT
                         ttaaatattct  TA-rich tract