Sequence
atgc intronic sequence ATGC exonic sequenceGCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgttagtttactaattgtggcaatgatatgcatagatttctggcttgtagttaccataacaatcataatctgtcatgatttatagggattcttttaaacta...
Basic information
species | Glycine max |
transcript | GLYMA03G03200.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G03200.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os06g04270.1 (Oryza sativa), 5'ss of exon 4
GCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgttagtttact--aattgtggcaatgatatgcatagatttctggcttgtagttaccataacaatcataatctgtcatgatttatagggattcttttaaacta
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GCATACAATCTGGGTTAAGAATGGAAACGATGGCTATGATGAGATTCGTGCCGCCATTAAGGAAGCAAAGGCGGTAACTGACAAGCCAACACTAATCAAGgttagattcctgtacattctgttatgctgtgttttgttatagagcttatcatatttagccaaaatgtactctttttag------------------------
upper sequence: GLYMA03G03200.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os04g19740.1 (Oryza sativa), 5'ss of exon 4
GCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgttagtttactaatt-gtggcaatgatatgcatagatttctggcttgtagttaccataacaatcataatctgtc-atgatttatagggattcttttaaacta
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GCATACTATCTGGGTGAAAAATGGTAACACAGGGTATGATGACATCCGTGCTGCAATTAAGGAAGCAAAGGCAGTCAAAGACAAGCCAACTCTTATCAAGgtga--cagctagtttgccactttaattt-ctttgcttatcatctcgattcagttttaccagacagaaggtgttgatcttccatatag--------------
upper sequence: GLYMA03G03200.1 (Glycine max), 5'ss of exon 4
lower sequence: AT3G60750.1 (Arabidopsis thaliana), 5'ss of exon 4
GCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgttagtttactaattgtggcaatgatatgcatagatttctggcttgtagttaccataacaatcataatctgtcatgatttatagggattcttttaaacta
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GCATGTTATCTGGGTGAAGAATGGAAACACTGGGTATGACGAGATCCGTGCTGCCATTAAGGAAGCTAAAACTGTTACTGACAAGCCTACTTTGATCAAGgtaactacac-aatttcttaaccatcaaacatcggt---tggtctaaag--acctt--tgatattgatttaccatattgcgta---atccag--------
upper sequence: GLYMA03G03200.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G45290.1 (Arabidopsis thaliana), 5'ss of exon 4
GCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgt--tagtttactaattgtggcaatga---tatgcatagatttctgg-cttgtagttacca-taacaatcataatctgtcatgatttatagggattcttttaaacta
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GCATGTTATCTGGGTAAAGAATGGAAACAATGGTTATGATGAGATCCGTGCTGCCATTAGGGAAGCTAAGGCTGTAACAGACAAGCCCACTTTGATTAAGgtatctgcacactttttttagccatgaactcattaagcaacgtttgatctcatggcctttggtgttaattgttttgtggcatggtttag------------------
upper sequence: GLYMA03G03200.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv16s0022g01440.t01 (Vitis vinifera), 5'ss of exon 4
GCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgttagtttactaattgtggcaatgatatgc------atagatttctggcttgtagttaccataacaatcat----aatctgtcatgatttatagggattcttttaaacta-----
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GCATGTGATTTGGGTGAAGAATGGTAACACTGGGTATGATGAAATTCGTGCTGCCATCAAGGAAGCAAAGGCTGTTAAAGACAAGCCCACATTGATTAAGgtcatttctccaacatgatctttaaggttttggtcaagagagttccaacttaaacttcttttcccccttttctgaagttggactttacctctataaacttctctgt-ttatgcag
upper sequence: GLYMA03G03200.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ07676 (Selaginella moellendorffii), 5'ss of exon 4
GCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgttagtttactaattgtggcaatgatatg-catagatttctggcttgtagttaccataacaatcataatctgtcatgatttatagggattcttttaaacta
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GCACACTATCTGGGTAAAGAACGGAAATACTGGCTATGATGAGATTAGAGCTGCCATTGCTGAAGCTAAGACGATTAAAGACAAGCCAACCATGATCAAGgt-atacgagtcattattgttatgatttgtcattgccttctatttt----ttctcttag------------------------------------------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|14990336|gb|BI316009.1|BI316009EST: CTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAG GTCACAACAACCATTGGTTATGGTTCTCCTAACAAGGCTAACTCCTACAGT
genomic: CTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgttagtttac ... catttcacagGTCACAACAACCATTGGTTATGGTTCTCCTAACAAGGCTAACTCCTACAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATGTTATTTGGGTAAAGAATGGAAATAATGGCTATGATGATATTCGTGCTGCCATTAAGGAAGCAAAAGCTGTCAAAGACAAACCCACATTAATCAAGgttagtttactaattgtggcaatgatatgcatagatttctggcttgtagttaccataacaatcataatctgtcatgatttatagggattcttttaaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG