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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttttcttcaattccaatttctctttgattctctccattcataatacattgatatcttgaatcagttgttgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGAGGACACAAGCGTCATCAGTCCCACGCTCGGCTTCAACATCAAAACCATA

Basic information

species Glycine max
transcript GLYMA11G07330.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G07330.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g22140.1 (Oryza sativa), 3'ss of exon 2
----------------------------------------------------------------------gtaagttttttcttcaattccaatttctctttgattctctccattcataatacat--tgatatcttg--aatcagttg-ttgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGAGGACACAAGCGTCATCAGTCCCACGCTCGGCTTCAACATCAAAACCATA
                                                                       |  |    ||   |  |||   || |||| |   | |||  |||  |  | | |  || | ||| |  ||||  | | ||   | |||| ||  |||| || || ||||| || || ||||| || ||||| || || ||||| ||  |||||||||| ||||| ||||||||||||||||| ||||| 
gtaggtgcccccctccacccccagagtttcttttgcgattctgtgggcaatccttctctctccattctggatctggcgcttgagcggttc--gttcctctgtagatttcttgattttttgtgcctgatgctgtctggggaatctatgggttcacccgcagGGGGCTGGATAACTCGGGGAAGACGACGATCGTGCTCAAGATCAATGGGGAGGATACCGGCGTCATCAGCCCCACCCTCGGCTTCAACATCAAGACCATC

upper sequence: GLYMA11G07330.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G18390.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaagtttt-ttcttcaattccaatttctctttgattctctccattcataatacattgatatcttgaatc---agttgttgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGAGGACACAAGCGTCATCAGTCCCACGCTCGGCTTCAACATCAAAACCATA
||| ||  | ||||| |||    | |  |||  ||| ||   | | |||  ||   || | |  ||| |    | |  || ||  |||| ||| | || ||||||||||| || || || ||||| || ||||||||||| |||||||| || || ||||| || || || ||||||||||||||||| 
gtatgtcatattcttaaatcgttaatcttctccgat-ctaatcgtacat--tatcatgttgtgctgattttggaatgtttttttggcagTGGACTTGATAATTCTGGGAAGACGACGATTGTTCTGAAAATAAACGGAGAAGACACAAGTGTGATTAGTCCAACTCTTGGATTCAACATCAAAACCATT

upper sequence: GLYMA11G07330.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0023g01820.t01 (Vitis vinifera), 3'ss of exon 2
gtaagttttttcttcaattccaatttctctttgattctctccattcataatacattgatatcttgaatcagttgttgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGAGGACACAAGCGTCATCAGTCCCACGCTCGGCTTCAACATCAAAACCATA
||| |||    |      | || |  || | |   ||     ||   |  |   |||    ||| |||  | | || ||   ||| ||  | || ||||| ||||| || ||||| ||  | || || || ||||||||||| || || ||||||||||| ||||||||||| ||||||||||| 
gtatgttcaagcactccctgcattccctttctatatcatataatcagtgttt--ttgtctgctttaatggggtatt-ttggacagGGGTCTTGATAATTCAGGGAAGACTACAATTGTGTTGAAAATCAATGGAGAGGACACTAGTGTTATCAGTCCCACCCTCGGCTTCAATATCAAAACCATC

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|208285337|gb|GE086053.1|GE086053
EST:     ATCATAAGGAAAATCAAGCGGAGAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
EST: gi|192324311|gb|FK018287.1|FK018287
EST:     ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
EST: gi|192299303|gb|FG988703.1|FG988703
EST:     ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
EST: gi|151394539|gb|EV264410.1|EV264410
EST:     ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCATAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
EST: gi|298163052|gb|HO011785.1|HO011785
EST:     ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
EST: gi|208296457|gb|GE090103.1|GE090103
EST:     ATCATAAGGAAAATCAAGCGGAGAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAAACCACAATCGTTCTAAAGATAAACGGAG
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAA-CCACAATCGTTCTAAAGATAAACGGAG
EST: gi|192330133|gb|FK020493.1|FK020493
EST:     ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCAAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
EST: gi|192313863|gb|FK010311.1|FK010311
EST:     ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
EST: gi|254337626|gb|GR849472.1|GR849472
EST:     ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
EST: gi|151393722|gb|EV263597.1|EV263597
EST:     ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGT                         CGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA
genomic: ATCATAAGGAAAATCAAGCGGAAAGAGAAGGAAATGCGAATTCTAATGGTgtaagttttt ... tgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattctctccattcataatacattgatatcttgaatcagttgttgttctgcagCGGATTGGACAATTCTGGGAAAACCACAATCGTTCTAAAGATAAACGGAGAGGACACAAGCGTCATCAGTCCCACGCTCGGCTTCAACATCAAAACCATA
                      cattgat  putative branch site (score: 4)
                                            ttgttct  putative PPT
                ataatacattgatat  TA-rich tract