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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAGTGTAGGGCCTTGTTCTTGATACTGTGCTAAATTTGTTGGATGGCGGAGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacagcatcttttgtctttctaaatcttacttattctgttggtacagccatatagttatgcttgttctgttatctcaccgcttctctttctctct...

Basic information

species Glycine max
transcript GLYMA07G05170.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G05170.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0002g00280.t01 (Vitis vinifera), 5'ss of exon 3
-ATAGTGTAGGGCCTTGTTCTTGATACTGTGCTAAATTTGTTGGATGGCGGAGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacagcatcttttgtctttctaaatcttacttatt-ctgttggt-acagccatatagt-tatgcttgttctgttatctcaccgcttctctttctctct------------------------------------------
 | ||| |      ||||  ||  |||  | | |||  ||   |||||| || ||||||||  |||||||||||||||| ||||||||||| || |||||||||||  |  | |  | || | || |||||  ||   ||  ||  |  | | |    |||||   ||     |||||  |    ||   |  | | | | |||                                          
CAGAGTTTCAACTTTTGTCTTTACTACCAT-CCAAAGCTGGGAGATGGCAGAAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgc-cttcttaatatgcccttttaaattgtataaataactactaattatatagttatagcacatatgcattctggaaatgaacttttgatttgtttttcttttgggttaaatttgttaatcatgctttctatgaacttgcag
















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

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAGTGTAGGGCCTTGTTCTTGATACTGTGCTAAATTTGTTGGATGGCGGAGAAATCATGCATCAAGCGCCTTCAGAAGGAATATAGAGCCCTTTGTAAAgtatgtacagcatcttttgtctttctaaatcttacttattctgttggtacagccatatagttatgcttgttctgttatctcaccgcttctctttctctct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA