Sequence
atgc intronic sequence ATGC exonic sequenceCAAAAGCTGCTGAATCATTGGCTAATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcaaattttattgcatgtatcttgaaatgtagatagttagtagattagtgtttttttgtgtgcaaaacatctttaactatgctcttttattatag
Basic information
species | Glycine max |
transcript | GLYMA13G43680.1 |
intron # | 22 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 22
lower sequence: LOC_Os02g11840.1 (Oryza sativa), 5'ss of exon 13
CAAAAGCTGCTGAATCATTGGCTAATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcaaattttattgcatgtatcttgaaatgtagatagttagtagattagtgtttttttgtgtgcaaaacatctttaac-tatgctcttttattatag
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CCAAAGCAGCAGAATCATTGGCAGATCCTGACGAGTACCCAAACTTGTTTGAAGACTGGCAAATTGCTCTCAATGTAGAAGCTAATGTCGCGCCCAAAAGgtatgttcgtaaaagtaaaaact------atgttcttt----tgtgaaagttttaccagttctctcttccatgcatgggacaagtcgtcaaggtttgctttcctcttctc-
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 22
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTAATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcag-agaatgcaaattttattgcatgtatcttgaaatgtagatagttagtagattagtgtttttttg-tgtgcaaaacatctt--taactatgctcttttattatag---------------------------------------------------
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CAAAAGCAGCAGAATCTTTGGCTGATCCTGAGGAGTACTCAAATCTTTTTGAAGATTGGCAAGTTGCTCTTTCTGTGGAAGCTAAAGCTGTAGAGACAAGgtaatcgctgcattttttttgctcaagtgtgcttttctcttc-catggtttttgaatcaagcagcgaatcgttaatacctactgcatccacgtagtgataactccggattatagatagcgacattctcagacctctctttaaaattgtctgttctccatttacag
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 22
lower sequence: AT3G15980.1 (Arabidopsis thaliana), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTAATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcaaattttattgcatgtatcttgaaatgtagatagttagtagattagtgtttttttgtgtgcaaaacatctttaactatgctcttttattatag
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CAAAAGCAGCTGAATCTTTAGCTGATCCTGAAGAGTACTCAAATCTTTTTGAGGATTGGCAAGTTGCTCTTTCTGTTGAAGCGAACACTGCAGAGACAAGgt---atccgagcacttattttctgctattcgcatttttcttccatggtcgttatggctttcgaactgtagttcaataattatatatgtacctagatatgatt-------
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 22
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTAATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcaaattttattgcatgtatcttgaaatgtagatagttagtagattagtgtttttttgtgtgcaaaacatctttaactatgctcttttattatag
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CAAAAGCTGCTGAATCTTTGGCTGATCCTGAAGAGTATCCTAATTTATTTGAGGACTGGCAAGTTGGTCTTGCCATTGAATCTAAAGTTGCCGAGACAAGgt-------gccattacatggccttctgc---tatgttgatttctctgtatttatctaactgttgtatttttatgttgctcacattatcgtaaatacctttctggaattt
upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 22
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTAATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcaaattttattgcatgtatcttgaaatgtagatagttagta--gattagtgtttttttgtgtgcaaaacatctttaactatgctcttttattatag
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AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgtatctct------tagaagttttat---acacatcctatttgatagactattgttcttgattttccctttttaactctcattatattgcttaatatacaatctcatgt---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|151398221|gb|EV268099.1|EV268099EST: GAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAG GAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAATCACA
genomic: GAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcag ... tttattatagGAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAATCACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAAAGCTGCTGAATCATTGGCTAATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcaaattttattgcatgtatcttgaaatgtagatagttagtagattagtgtttttttgtgtgcaaaacatctttaactatgctcttttattatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG