Sequence
atgc intronic sequence ATGC exonic sequenceCTGGGCCATCAATCTGATGGCTGATGTTGTCCAACATGAAAATGTAAATAAGATGAATGCGCATAACGTTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgcttccattttttttcattctcaagtgattgcaaggaagaaaagatgtgccacacaagtgctatatattttcattttctactttactaaattgcat...
Basic information
species | Glycine max |
transcript | GLYMA13G39230.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G39230.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os11g05540.1 (Oryza sativa), 5'ss of exon 4
CTGGGCCATCAATCTGATGGCTGATGTTGTCCAACATGAAAATGTAAATAAGATGAATGCGCATAACGTTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgcttccattttttttcattctcaagtgattgcaag-gaagaaaagatgtgccacacaagtgc-tatatattttcattttctactttactaaattgcat
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GTGGGCAGTTAATTTAATGGCTGATGTTGTCCAAGAAGAACAGATAAACAAGATGAATGCTCGTAACATTGCTATGGTTTTTGCACCAAATATGACTCAGgtaatgcactgtcctaata-ataaacttatgattttaagtgtggtcgatgcttactgt-catgcacatatgtaatgcag-----------------------
upper sequence: GLYMA13G39230.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g05900.1 (Oryza sativa), 5'ss of exon 4
CTGGGCCATCAATCTGATGGCTGATGTTGTCCAACATGAAAATGTAAATAAGATGAATGCGCATAACGTTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgcttccattttttttcattctcaagtgattgcaaggaagaaaagatgtgccacacaagtgctatatattttcattttctactttactaaattgcat
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CTGGGCTGTTAATTTGATGGCTGATGTTGTCCAAGAAGAGCAAATAAACAAGATGAATGCGCGCAATATTGCCATGGTTTTTGCACCAAATATGACTCAGgtagtgtgttatcctattgcgatcatg-gtactgatatttcattaggtggattcta-actgttgtcacacatgta-atgcag------------------
upper sequence: GLYMA13G39230.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0080g00580.t01 (Vitis vinifera), 5'ss of exon 4
CTGGGCCATCAATCTGATGGCTGATGTTGTCCAACATGAAAATGTAAATAAGATGAATGCGCATAACGTTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgcttccattttttttcattctcaagtgat-tgcaaggaagaaaagatgtg-ccacacaagtgctatatattttcattttctactttactaaattgcat
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TTGGGCCATCAACCTCATGGCAGATGTCGTCCAGGAGGAGCATCTAAACAAAATGAATGCACGCAACATTGCAATGGTCTTTGCACCAAACATGACTCAGgtgaggttgaatggtttacgcttcttgaaaattgtccaagtagggatttgcatgtccagatgaaattgaatgaatatgacgttct-cattgc-attttaaatMapped 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|41146153|gb|CK606364.1|CK606364EST: AGATGAATGCGCATAACGTTGCCATGGTTTTTGCACCAAACATGACTCAG ATGGCAGACCCTATATCTGCATTGATGTATGCAGTTCAAGTAATGAACTTC
genomic: AGATGAATGCGCATAACGTTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgcttcc ... ctgattgcagATGGCAGACCCTATATCTGCATTGATGTATGCAGTTCAAGTAATGAACTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGGGCCATCAATCTGATGGCTGATGTTGTCCAACATGAAAATGTAAATAAGATGAATGCGCATAACGTTGCCATGGTTTTTGCACCAAACATGACTCAGgtgtgcttccattttttttcattctcaagtgattgcaaggaagaaaagatgtgccacacaagtgctatatattttcattttctactttactaaattgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaagaaa