Sequence
atgc intronic sequence ATGC exonic sequenceGATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgttttctccccgctcttatatcatgcatgcctccaatttctcttttaacttcatttacaaacatttttttattttttttgaag
Basic information
species | Glycine max |
transcript | GLYMA20G28740.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os07g07974.1 (Oryza sativa), 5'ss of exon 7
GATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgttttctccccgctcttatatcatgcatgcctccaatttctcttttaacttcatttacaaacatttttttattttttttgaag---------------
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GAAGATCCTAACAACACTCCAGCTTCAGCTCGACATAAGAGAGGATGCAATTGCAAGAAGTCAAGCTGTCTTAAGAAATACTGTGAATGCTATCAGgtactaaagattatctgaaaacttgttttcaagacagttatctga-aacttagcctgtaatttgttacttatggtttaaatgcttgatttaataaaag
upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G153754_T01 (Zea mays), 5'ss of exon 7
GATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgtt-ttctccccgctcttatatcatgcatgcctccaatttctcttttaacttcatttacaaacatttttttatttttt--ttgaag----
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GAAGATCCTAACAACACTCCGGCTTCGGCTCGTCACAAGAGAGGATGCAATTGTAAGAAGTCAAGCTGTCTCAAGAAATACTGTGAATGCTACCAGgtaattcatcccaagctgtgatgat-ctcatctgaaattgtacctgctggat--tttacttacgctttttaagtgtttggttgaataaag
upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 5
lower sequence: AT4G14770.1 (Arabidopsis thaliana), 5'ss of exon 6
GATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgttttc-----tccccgctcttatatcatgcatgcctcca----att--tctcttttaacttcatttacaaacatttttttatt--ttttttgaag
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GATGATGCAAGCAAAACTCCAGCTTCTGCGCGCCATAAACGTGGCTGCAACTGCAAGAAATCAAACTGTCTGAAGAAATACTGTGAATGCTATCAGgtttttattttccctcatcgatgtgctttcaatggttccatgtgattaacttcctatggcctgattccggtaatttggtatgttgtttctttaaag
upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 5
lower sequence: AT3G22780.1 (Arabidopsis thaliana), 5'ss of exon 7
GATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgttttctccccgctcttatatcatgcatgcctccaat----ttctcttttaacttcatttacaaacatttttt---tattttttttgaag-----------
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GATGATGCCAGTAAAACCCCGGCTTCTGCACGACACAAACGTGGCTGCAACTGCAAGAAATCAAACTGTATGAAGAAATACTGTGAATGCTATCAGgttttcctttcatcgtctattcatat-tgtattcaatatttttctgtgtaagttatattcaatggtctgatttagatactttgttcctaatgatcttgtag
upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 5
lower sequence: AT3G22760.1 (Arabidopsis thaliana), 5'ss of exon 7
GATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgttttctccccgctcttatatcatgcatgcctccaatttctcttttaacttcatttacaaacatttttttattttttttgaag
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GAGGATGCAAGTAAAACTCCAGCTTCAGCGCGACACAAACGAGGCTGTAACTGCAAGAAATCAAACTGTCTGAAGAAATACTGTGAATGCTATCAGgtatttccattaaactccatacacatcagtgtaagattcccttctgtggattggttctga-------ttcattgatcgtgtag
upper sequence: GLYMA20G28740.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv05s0020g03880.t01 (Vitis vinifera), 5'ss of exon 8
GATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgttttctccccgctcttatatcatgcatgcctccaatttctcttttaacttcatttacaaacatttttttattttttttgaag
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GATGAACCTAGCAAAACTCCAGCTTCAGCACGACACAAAAGAGGATGCAACTGCAAGAAATCAAGTTGCCTAAAGAAATATTGCGAATGCTATCAGgtttttcccttggtcc-accctatat-tttttttgatgttctatatcatctgattcagaattggtgcct--ttcttctcaaagMapped 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|18040703|gb|BM308997.1|BM308997EST: GTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAG GGTGGTGTTGGTTGCTCCGTAAGCTGTAGATGTGAAGGATGCAAGAACACA
genomic: GTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgttttctccc ... ttttttgaagGGTGGTGTTGGTTGCTCCGTAAGCTGTAGATGTGAAGGATGCAAGAACACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGACCTTAACAAAACTCCAGCCTCAGCACGACACAAAAGAGGATGTAATTGCAAGAAATCAAGCTGCCTAAAGAAATATTGTGAATGCTATCAGgttttctccccgctcttatatcatgcatgcctccaatttctcttttaacttcatttacaaacatttttttattttttttgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA