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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acgtggcatttccttttaataaataaaaagataaaaaaaatgatgatatttatagaatatgtcaactgggtaattcttaattttaaatttgtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAGTGGC

Basic information

species Glycine max
transcript GLYMA07G05170.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G05170.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G50430.2 (Arabidopsis thaliana), 3'ss of exon 2
acgtggcat-ttccttttaataaataaaaagataaaaaaaatgatgatatt-tatagaatatgtcaactgggtaattcttaattttaaatttgtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAGTGGC
  |    ||  |  |||| ||   |       ||  | || |  |  | || |  |   ||  |     |  |  ||   |  ||    | || |||   |||| ||||| || |||||||| ||||||||||| |||| ||| |||||||| ||||
--gctctatgctagttttcatggtttttggtctaggataagtttttttcttatgaatgttactttggaagtatctttgacatgttctgttctggattgctagGAACCAGTCTCGCATGTTGTTGCTCGTCCTTCCCCAAATGACATTCTTGAATGGC

upper sequence: GLYMA07G05170.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G17280.1 (Arabidopsis thaliana), 3'ss of exon 2
---acgtg-gcatttccttttaataaataaaaagataaaaaaaatgatgatatttatagaatatgtcaactgggtaattcttaattttaaatttgtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAGTGGC
   |  || | || |  | ||  |   |      | |  ||   | ||  | | | | |  | | |     || || ||  ||  ||    |||     |  |||| ||||| || |||||||| ||||||||||| |||| ||| ||||| |||||||
tctatatgtgaatgttttcttggtt--ttggtttagagtaagtttcatattttcttttg--tttctttgggggttatttaatatgttctgtttttggcctttagGAACCAGTCTCCCATGTTGTTGCTCGTCCTTCCCCAAATGACATTCTCGAGTGGC

upper sequence: GLYMA07G05170.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv09s0002g00280.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------acgtggcatttccttttaataaataaaaagat---aaaaaaaatgatgat--atttatagaatatgtcaactgggtaattcttaattttaaatttgtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAGTGGC
                                          ||     || |  || ||  | |||   |      |||  || |  ||||   ||| |    |  || || |  || | || |  |||  |   || | |||||||| |||||||| ||||| || || || ||||| |||| |||||||||||||||||
gtatgccttcttaatatgcccttttaaattgtataaataactactaattatatagttatagcacatatgcattctggaaatgaacttttgatttgtttttcttttgggttaaatttgttaatcatgctttcta---tgaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAGTGGC

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|213589359|gb|DB961692.1|DB961692
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|120495095|gb|EH223262.1|EH223262
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|24205463|gb|BU964716.1|BU964716
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|207707971|gb|GD692496.1|GD692496
EST:     CCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
genomic: CCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|9902562|gb|BE611593.1|BE611593
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|7692130|gb|AW760244.1|AW760244
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCACCGAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|298173240|gb|HO020224.1|HO020224
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCGAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|298163944|gb|HO013589.1|HO013589
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|120491908|gb|EH220075.1|EH220075
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
EST: gi|9264559|gb|BE352706.1|BE352706
EST:     AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAA                         GAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG
genomic: AGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacag ... gtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatttatagaatatgtcaactgggtaattcttaattttaaatttgtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAGTGGC
                             tcttaat  putative branch site (score: 3)
                         taattcttaattttaa  TA-rich tract