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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattaagggttatctctttcttgtttatcttgttaatgctacagcaattacttatttgtttgaagtcacagtgatgattgctgttctgattttttggtcttttctctttttgttctcaatcgattggcttgatggaacatttaagTTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTGCAATTCATTATCAGACAGTGATCAACTTCGTCCTGTTTCAATACCAGAT

Basic information

species Glycine max
transcript GLYMA20G16030.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G16030.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g43560.1 (Oryza sativa), 3'ss of exon 11
gtaagattaagggttatctctttcttgtttatcttgttaatgctacagcaattacttatttgtttgaagtcacagtgatgattgctgttctgattttttggtcttttctctttttgttctcaatcgattggcttgatggaacatttaagTTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTGCAATTCATTATCAGACAGTGATCAACTTCGTCCTGTTTCAATACCAGAT
                                   || ||| ||| ||| || || ||||| ||| ||     |   |  | |       |   || |     | |||         |   | | | |    ||         | | ||  | |||    |    |||||||| || ||||||||||| |||||||| ||||||||  | ||||||| |||||||||||| ||||||||| | || |||
-------------------------------gtaggtcaat-cta-agctat-acatattttttttaa-----aaaaaaaactagcaccttacattatcaagttgttcatcacacaataatatttggtcatgttt--------tatcagCACGCAAGAAACCAATGAGTGGACTATATATCCTTGGATACACAGCAACTGCAATTCTCTTTCAGACAATGATCAACTTCGCCCTGTTTCATTTCCTGAT

upper sequence: GLYMA20G16030.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv18s0041g00100.t01 (Vitis vinifera), 3'ss of exon 11
gtaagattaagggttatctctttcttgtttatcttgttaatgctacagcaattacttatttgtttgaagtcacagtgatgattgctgttctgattttttggtcttttctctttttgttctcaatcgattggcttgatggaacattta--agTTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTGCAATTCATTATCAGACAGTGATCAACTTCGTCCTGTTTCAATACCAGAT
            || |   |||  | |       |  |  ||| ||  | ||  | ||||| |       ||||   ||  ||  |  ||     |   | | | || || ||   | | |  |   |||| || |   |   || |  ||| | ||||| ||||  ||||||||||||||||||||||| |||||||||||||||||| ||||||| |  || ||||||||||||||||| || || |||
------------gtgagaacttcatggcgacctctagttttgccacctctat-gcatatttctacctgtacacaagaat--ttatttctccatactcaggctttgttatccttacatgccc--ttctttgggtttacttatttttaactagTGCTCAAACTGCTGAGGAGTGGACAATTTATCCTTGGATCCACAGCAATTGCAATTCACTATCAGAAAACGACCAACTTCGTCCTGTTTCGATTCCTGAT
















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|7685675|gb|AW756323.1|AW756323
EST:     AATGAATTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTAACCA                         TTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTG
genomic: AATGAATTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTAACCAgtaagattaa ... aacatttaagTTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTG
EST: gi|308098770|gb|HO760511.1|HO760511
EST:     AATGAATTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTAACCA                         TTCCCAAACGGCCGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTG
genomic: AATGAATTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTAACCAgtaagattaa ... aacatttaagTTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTG
EST: gi|7146905|gb|AW508827.1|AW508827
EST:     AATGAATTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTAACCA                         TTCCCCAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTG
genomic: AATGAATTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTAACCAgtaagattaa ... aacatttaagTTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTG
EST: gi|9204212|gb|BE330436.1|BE330436
EST:     AATGAAGTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTTACCA                         TTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTG
genomic: AATGAATTTTCATACTACATGATGATATGCTCGAGCTTTATTCTTAACCAgtaagattaa ... aacatttaagTTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttggtcttttctctttttgttctcaatcgattggcttgatggaacatttaagTTCCCAAACGGCTGGCGAGTGGACAATTTATCCTTGGATTCACAGCAATTGCAATTCATTATCAGACAGTGATCAACTTCGTCCTGTTTCAATACCAGAT
                                    gcttgat  putative branch site (score: 5)
                                             aacatttaa  TA-rich tract