Sequence
atgc intronic sequence ATGC exonic sequenceAGCTCATAGAATTGGACAACAAGAAGTTGTTAACATTTATAGATTTGTGACAAGCAAAAGTGTTGAGGAAGATATTTTGGAACGTGCTAAGAAGAAAATGgtatgtttaaaatcattagatcattagatatctggtgctgtttttgtttcatttcatctctttttctccacctttggcatcctatatttttatgtttaat...
Basic information
species | Glycine max |
transcript | GLYMA02G45000.1 |
intron # | 20 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G45000.1 (Glycine max), 5'ss of exon 20
lower sequence: LOC_Os07g46590.1 (Oryza sativa), 5'ss of exon 9
AGCTCATAGAATTGGACAACAAGAAGTTGTTAACATTTATAGATTTGTGACAAGCAAAAGTGTTGAGGAAGATATTTTGGAACGTGCTAAGAAGAAAATGgtatgtttaaaatcattagatcattagatatctggtgctgtttttgtttcatttcatctctttttctccacctttggcatcctatatttttatgtttaat
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GGCACACAGGATTGGGCAACAAGAAACTGTTAACATATATCGTTTCGTGACATGCAAAAGTGTTGAAGAGGATATATTGGAACGTGCAAAGAAAAAAATGgtg-----------atgagcctgatttgtttcatatattgttttaataa-atataaacgaataacctctgactt----gttctttttctatatatgtcag
upper sequence: GLYMA02G45000.1 (Glycine max), 5'ss of exon 20
lower sequence: AT2G13370.1 (Arabidopsis thaliana), 5'ss of exon 21
AGCTCATAGAATTGGACAACAAGAAGTTGTTAACATTTATAGATTTGTGACAAGCAAAAGTGTTGAGGAAGATATTTTGGAACGTGCTAAGAAGAAAATGgtatg-----tttaaa-atcattagatcattagatatctggtgctgtttttgtttcatttcatctcttt-ttctccacctttggcatcctatatttttatgtttaat
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AGCGCATAGAATTGGGCAACAAGAGGTCGTGAACATTTATAGATTTGTCACTAGCAAAAGTGTTGAAGAAGAAATCCTGGAGCGCGCCAAAAGAAAAATGgtatactagttttagacatgcttagcttat-gtttacatgaatcttttagcagtgcaatgaattcctttgtcctgcatcctcaccttcatgaaataattcc------
upper sequence: GLYMA02G45000.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 5'ss of exon 20
AGCTCATAGAATTGGACAACAAGAAGTTGTTAACATTTATAGATTTGTGACAAGCAAAAGTGTTGAGGAAGATATTTTGGAACGTGCTAAGAAGAAAATGgtatgtttaaaatcattagatca----ttagata-------tctggtgctgtttttgtttcatttcatctctttttctccacctttggcatcctata-ttttta-tgtttaat---------------------------------------------------------
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GGCTCATAGAATTGGGCAACGAGAAGTAGTTAACATCTACCGATTTGTTACAAGCAAAAGTGTTGAGGAAAATATTCTGAAGCGAGCCAAGCAAAAGATGgtaaaccaaacatttctttgtctatgcttaaatccttttcttttcatactgtttatatttaaaagcatgtctgtttgcacacatggtggattatatggtctctactatttcactaattgaggccaaacaatttacatgttttttcttatgttcccattttttctttatag
upper sequence: GLYMA02G45000.1 (Glycine max), 5'ss of exon 20
lower sequence: EFJ29460 (Selaginella moellendorffii), 5'ss of exon 19
AGCTCATAGAATTGGACAACAAGAAGTTGTTAACATTTATAGATTTGTGACAAGCAAAAGTGTTGAGGAAGATATTTTGGAACGTGCTAAGAAGAAAATGgtatgtttaaaatcattagatcattagatatctggtgctgtttttgtttcatttcatctctttttctccacctttggcatcctatatttttatgtttaat
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GGCTCATCGTATTGGGCAAGAGTTTGTCGTCAACATTTATCGCTTCGTGACATGTAGAAGTGTCGAGGAAGACATTTTGGAACGCGCAAAAAAGAAAATGgtatgtgtgt--ttttttatttgtcgtgtatttctcactgttcgc-tttcag------------------------------------------------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|16995860|gb|BM085232.1|BM085232EST: CAAGCAAAAGTGTTGAGGAAGATATTTTGGAACGTGCTAAGAAGAAAATG GTTCTGGACCACTTGGTGATTCAAAAGCTAAATGCAGAGGGTAGGCTGGAG
genomic: CAAGCAAAAGTGTTGAGGAAGATATTTTGGAACGTGCTAAGAAGAAAATGgtatgtttaa ... tgttccatagGTTCTGGACCACTTGGTGATTCAAAAGCTAAATGCAGAGGGTAGGCTGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCTCATAGAATTGGACAACAAGAAGTTGTTAACATTTATAGATTTGTGACAAGCAAAAGTGTTGAGGAAGATATTTTGGAACGTGCTAAGAAGAAAATGgtatgtttaaaatcattagatcattagatatctggtgctgtttttgtttcatttcatctctttttctccacctttggcatcctatatttttatgtttaat
- - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccacc