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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACACATTGGTGTAACTGTTGATGACACATACAAGGCATGTGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaatttttctttagttttcaattcattctagtggtgcccactgcccatatactgttgtgaatatatcattgtattttttaacagctatgaattgtt...

Basic information

species Glycine max
transcript GLYMA11G20000.3
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G20000.3 (Glycine max), 5'ss of exon 7
lower sequence: Vv06s0061g00460.t01 (Vitis vinifera), 5'ss of exon 7
GACACATTGGTGTAACTGTTGATGACACATACAAGGCATGTGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaaca-atttttctttagttttcaattcattctagtggtgcccactgcccatatactgttgtgaatatatcattgtattttttaacagctatgaattgtt-
||||||| ||  | || || |||||||||||||||||||| ||||||||| |   ||| || ||||||||||| || |||||||| |||||||||  |  ||| |||| ||     ||   |  ||   |  |   |  || || |      |   | | |    || |   |||  || |  |  |   | 
GACACATAGGCATCACAGTCGATGACACATACAAGGCATGCGAAAGATTTGAACGTCTAGGGGTTGAGTTTGTAAAAAAACCAGATGATGgtaactcacctttttttaattccatttttcattgagcactatcatgtctcctta-atgaacatcggtttcttgg-gtttaaattagtaggtgggggtaactg
















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|151405503|gb|EV275317.1|EV275317
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|209700450|gb|BW664439.1|BW664439
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|15815588|gb|BI787863.1|BI787863
EST:     GAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCCA-AAGATG                         GGAAAATGAAAGGTATAGCATTTATT
genomic: GAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACC-AGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATT
EST: gi|151403449|gb|EV273259.1|EV273259
EST:     TGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATT
genomic: TGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATT
EST: gi|24135476|gb|BU925986.1|BU925986
EST:     AGAAAGATTTCAGAATCTGCGAGTTGAGTTTGGTCACAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|192316899|gb|FK010858.1|FK010858
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|14125384|gb|BG789822.1|BG789822
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|16105017|gb|BI892757.1|BI892757
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATA
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATA
EST: gi|151404584|gb|EV274398.1|EV274398
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|24135454|gb|BU925964.1|BU925964
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAACGCATAACATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|209716563|gb|BW658973.1|BW658973
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|209715503|gb|BW682169.1|BW682169
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|192313140|gb|FK003722.1|FK003722
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|14990115|gb|BI315788.1|BI315788
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|16347044|gb|BI972639.1|BI972639
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAAATG                         GGAAAATGAAA
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAA
EST: gi|151397906|gb|EV267779.1|EV267779
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|24135595|gb|BU926105.1|BU926105
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|209715504|gb|BW682170.1|BW682170
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|209716564|gb|BW658974.1|BW658974
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATTAAAGATCCTGATGGATACTGGATTG
EST: gi|298189901|gb|HO038304.1|HO038304
EST:     TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATG                         GGAAAATGAAAGGTATAGCATTTATT
genomic: TGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaattt ... ttttctgcagGGAAAATGAAAGGTATAGCATTTATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACACATTGGTGTAACTGTTGATGACACATACAAGGCATGTGAAAGATTTCAGAATCTGGGAGTTGAGTTTGTTAAGAAACCAGAAGATGgtaacaatttttctttagttttcaattcattctagtggtgcccactgcccatatactgttgtgaatatatcattgtattttttaacagctatgaattgtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG