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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTGCAAGATTGATTCCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatgtgtagaaatgaaaatgtttgtttatagtgttttacaatgcattgtcattatttaactattggctgcttgcag

Basic information

species Glycine max
transcript GLYMA07G02720.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G02720.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G139900_T01 (Zea mays), 5'ss of exon 3
TTGTGCAAGATTGATTCCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatga----aatgtgtagaaatgaaaatgtttgtttatagtgttttac---aatgcat-tgtcat--tatttaactattggctgcttgcag----
 | ||||||||||| ||||| || || ||||||||||||   || ||||||||||| ||||| ||||||  |    |||   |     |   |    ||  ||||  || |||||   |  |||  |  |||   |||| ||| ||   |            
CTTTGCAAGATTGACTCCGAGGGCAAGGCAAGGAAGGTTGTAGGCTGCTCCTGTGTCGTTGTCAAGgtagcatatcaatcccttactttcctacaaattaattattttggtttaccttagggcaagtaacatgacatttcactgtttcatttcaattaccag
















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|192326390|gb|FK015907.1|FK015907
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|4289873|gb|AI437988.1|AI437988
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|192322808|gb|FK014499.1|FK014499
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGGAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|19453051|gb|BM954461.1|BM954461
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGA-G                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|31312036|gb|CD397239.1|CD397239
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|9565648|gb|BE475157.1|BE475157
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|15813340|gb|BI785615.1|BI785615
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|10843495|gb|BF067183.1|BF067183
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|31467182|gb|CD409210.1|CD409210
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|7685625|gb|AW756273.1|AW756273
EST:     CCGAAGGATAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATGTCTGTGAGGAGCATGAAGCCTATAACGTCGTT
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTT
EST: gi|31312485|gb|CD397688.1|CD397688
EST:     CCGAAGGAAAAGCCAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCACTGAAGCCTATAACGTCGTTCTGCAGCACTGTGA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCA-TGAAGCCTATAACGTCGTTCTGCAGCA-TGTGA
EST: gi|8286292|gb|BE023851.1|BE023851
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTGCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|38191034|gb|CF920240.1|CF920240
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|6502184|gb|AW203557.1|AW203557
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|4289736|gb|AI441518.1|AI441518
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|21600858|gb|BQ611189.1|BQ611189
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|21887296|gb|BQ740509.1|BQ740509
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|22523351|gb|BU082171.1|BU082171
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGCTGTGAAG                         GATTTCCGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGCGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|16346522|gb|BI972117.1|BI972117
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|298172618|gb|HO019658.1|HO019658
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|11411780|gb|BF423722.1|BF423722
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCAGTGAGGAGCATGAAGCCTATAACGTCGTGCTGCAGCATGTGATA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|254318316|gb|GR832484.1|GR832484
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|14259489|gb|BG882397.1|BG882397
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|21594891|gb|BQ610300.1|BQ610300
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|7795359|gb|AW780818.1|AW780818
EST:     CCGAAGGAAAAGCAATGAAGGTTACTGGTTGCTCCTGTGTGGCTGTGAAT                         GATTTCCGTGAGGAGCATGAAGCC
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCC
EST: gi|21594683|gb|BQ610232.1|BQ610232
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|9259287|gb|BE347364.1|BE347364
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|192331558|gb|FK019947.1|FK019947
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|4302688|gb|AI443369.1|AI443369
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|18039398|gb|BM307692.1|BM307692
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
EST: gi|120493900|gb|EH222067.1|EH222067
EST:     CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAG                         GATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA
genomic: CCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatg ... ctgcttgcagGATTTCGGTGAGGAGCATGAAGCCTATAACGTCGTTCTGCAGCATGTGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGTGCAAGATTGATTCCGAAGGAAAAGCAAGGAAGGTTACTGGTTGCTCCTGTGTGGTTGTGAAGgtatgaaatgtgtagaaatgaaaatgtttgtttatagtgttttacaatgcattgtcattatttaactattggctgcttgcag

- - - - - - - - -  AAGGAA
- - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - -  AAGGAA