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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaaacctttatcagcctttctgactgagctggtggtgacttaaaatgatgtttacatctttactgtaatattattttctaatccacattctgtatcatttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAAAGCTATTGTGCTGGGAAAATATCACTATGTTCTCTACTTCCTCGTTTTG

Basic information

species Glycine max
transcript GLYMA06G44340.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 22
lower sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 20
gtaagcaaacctttatcagcctttctgactgagctggtggtgacttaaaatgatgtttacatctttactgtaatattattttctaatccacattctgtatcatttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAAAGCTATTGTGCTGGGAAAATATCACTATGTTCTCTACTTCCTCGTTTTG
                 |   | |   |   |  |  ||   ||||    || | || | | ||  ||  |    | | |    ||      |  |||||  | |    || || |||||||||||  || | ||  |||||||||| ||||| ||||||||| | ||| | ||||| |||||||||||||| ||||||||||| ||||||
---------------gtaagttataacatatattttatgtatactt----tgct-ttcaaagctccacctt---gtgaatcctaaacttgggtgttgtattttgtacctagAACCGCACTTGCTGGTATAGTGACATTGTTGCATGCATGCCTTGACATGAAATCCATTATACTGGGGAAATATCACTATGTGCTCTACTTCCTTGTTTTG
















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|120530135|gb|EH258269.1|EH258269
EST:     GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACC                         GACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
genomic: GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACCgtaagcaaac ... atttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
EST: gi|31462296|gb|CD404324.1|CD404324
EST:     ATCGCTTCCTACTATCACC                         GACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
genomic: ATCGCTTCCTACTATCACCgtaagcaaac ... atttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
EST: gi|10847592|gb|BF070244.1|BF070244
EST:     GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACC                         GACAGCACTTGCTGGATTA-TTACCATGTTGCATG
genomic: GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACCgtaagcaaac ... atttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATG
EST: gi|10237756|gb|BE806644.1|BE806644
EST:     GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTCCTATCACC                         GACAGCACTTGCTGGATTAATTACCCATGTT-CATGCTTGCCTAGACATGA
genomic: GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACCgtaagcaaac ... atttttacagGACAGCACTTGCTGGATTAATTACC-ATGTTGCATGCTTGCCTAGACATGA
EST: gi|10234169|gb|BE803057.1|BE803057
EST:     GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTGCTACTATCACC                         GACAGCACTTGCTGGATTAATTACCATGTAGCATGCTTGCCTAGACATGAA
genomic: GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACCgtaagcaaac ... atttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
EST: gi|9440032|gb|BE440543.1|BE440543
EST:     GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACC                         GACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
genomic: GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACCgtaagcaaac ... atttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
EST: gi|120492692|gb|EH220859.1|EH220859
EST:     GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACC                         GACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
genomic: GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACCgtaagcaaac ... atttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
EST: gi|120530034|gb|EH258168.1|EH258168
EST:     GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACC                         GACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA
genomic: GGCTTATTAACCCTTAATCCATATCATTCCGATCGCTTCCTACTATCACCgtaagcaaac ... atttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacatctttactgtaatattattttctaatccacattctgtatcatttttacagGACAGCACTTGCTGGATTAATTACCATGTTGCATGCTTGCCTAGACATGAAAGCTATTGTGCTGGGAAAATATCACTATGTTCTCTACTTCCTCGTTTTG
                        ttctaat  putative branch site (score: 2)
                                           tcattttt  putative PPT
       tttactgtaatattat  TA-rich tract