Sequence
atgc intronic sequence ATGC exonic sequenceAGAAGTATGAACCAGTTTGTGCTAAGTGGACTACAGAACGATGTGCTGTATGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagtgtcttcagtttattataggaattagaattcataggtctaaagatattggagctgataaaagtggcgaggtaatgactgtttgggcaatca...
Basic information
species | Glycine max |
transcript | GLYMA19G17460.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G17460.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g46700.1 (Oryza sativa), 5'ss of exon 11
AGAAGTATGAACCAGTTTGTGCTAAGTGGACTACAGAACGATGTGCTGTATGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagtgtcttcagtttattataggaattagaattcataggtctaaag--atattggagc-tgataaaagtggcgaggt--aatgactgtttgggcaatca-
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AACCATATGATACTGTAAATGTAAAATGGACAACAGAAAGATGTGCAGTCTGTAGATGGGTTGAAGACTGGGATTACAACAAAATTGTAATCTGTAACAGgtagttaagttt-------ttgttacgagaaatgtttttcttaactgtgaaatcattttgaaatacggaacaaactctgaacttgactaacaatattcacgttcag
upper sequence: GLYMA19G17460.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G170412_T01 (Zea mays), 5'ss of exon 11
AGAAGTATGAACCAGTTTGTGCTAAGTGGACTACAGAACGATGTGCTGTATGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagtgtcttcagttt---attataggaattagaattcataggtctaaagatattggagctgataaaagtggcgaggtaatgactgtt-tgggcaatca
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ACCCATATGATCCTGTAAATGTAAAATGGACGACAGAAAGATGTGCAGTCTGTAGATGGGTTGAAGATTGGGATTACAACAAAATTGTGATTTGTAATAGgtaaatgaacttgtattatttgcaatttttttctccaggctcaatttgttttgaaatatggtggaaatccgaagctgcaac-taacaacactcatgttcag---
upper sequence: GLYMA19G17460.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 5'ss of exon 11
AGAAGTATGAACCAGTTTGTGCTAAGTGGACTACAGAACGATGTGCTGTATGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagtgtcttcagtttattataggaattagaattca---taggtctaaagatattggagctgataaaagtggcgaggtaatgactgtttgggcaatca
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AGACATATGAGCCGGTCAATGCGAAGTGGACAACAGAACGATGTGCAGTTTGCAGATGGGTTGAAGATTGGGACTACAACAAGATTATTATCTGCAACAGgtgctttttaatctttt-tttgctctagttttttttcttaaaaccatgatttcatctacctaaa-taatgggacttgccgttagacttatatttttgtgccc-
upper sequence: GLYMA19G17460.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 5'ss of exon 11
AGAAGTATGAACCAGTTTGTGCTAAGTGGACTACAGAACGATGTGCTGTATGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagtg---tcttcagtttattataggaattagaattcataggtctaaagat---attggagctgataaaagtggcgaggtaatgactgtttgggcaatca
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AAAAGTATGAGCCGGTCAACGTGAAATGGACAACCGAGCGATGTGCAGTTTGCAGATGGGTGGAAGATTGGGACTACAACAAGATCATTATCTGCAACAGgtgatgttctaaactgtgtagtttctcttaaacttt----ttgacaaatctaagattctgattgaaaagcattatttcgtcatag-agtaaacctttgtgatagc-
upper sequence: GLYMA19G17460.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 5'ss of exon 12
AGAAGTATGAACCAGTTTGTGCTAAGTGGACTACAGAACGATGTGCTGTATGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagtgtct--tcagtttat-tataggaattagaattcata--ggtctaaagatattggagctgataaaagtggcgaggtaatgactgtttgggcaatca
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AAAAATATGAGCCTGTTCATGCTAGGTGGACAACAGAACGATGTGCTGTATGTAGATGGGTTGAAGATTGGGACTACAACAAAATTATTATATGCAACAGgtattgtcaatttagattatcttgtgtctgagtagctagtttcataatggtccttcagcacaataactgaacatattgcagaagca-caatgacttgggat----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|37996740|gb|CF808329.1|CF808329EST: TGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAG ATGTCAAATAGCCGTTCATCAAGAATGTTATGGAGCAAGAAATGTTCAAGA
genomic: TGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagt ... tattttatagATGTCAAATAGCCGTTCATCAAGAATGTTATGGAGCAAGAAATGTTCAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAGTATGAACCAGTTTGTGCTAAGTGGACTACAGAACGATGTGCTGTATGTAGATGGGTTGAAGATTGGGATTACAACAAAATTATCATTTGCAACAGgtaatatagtgtcttcagtttattataggaattagaattcataggtctaaagatattggagctgataaaagtggcgaggtaatgactgtttgggcaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA