Sequence
atgc intronic sequence ATGC exonic sequencegtaagtggcgtaccaaagttatactttttactaaatttaagtatatattttcaatgactattgctcatgtggtgttttgtttattgcacatgttcaaatgcatgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
Basic information
species | Glycine max |
transcript | GLYMA11G15580.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G15580.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g17570.4 (Oryza sativa), 3'ss of exon 5
gtaagtggcgtaccaa---agttatactttttactaa-atttaagtatatattttca-atgactattgctcatgtggtgttttgtttattgcacatgttcaaatgcatgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
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gtaagtagcattcttgctcaaccacatttttcacttatatactgtgacacatttctacataaccttttagtctgaatatgtttgactgatgctgatgt-cattttcatgcagTGATGTCTTCGAATGACTCAATGGGTACAGTCTTTAAGTGTTTGTCAAAAGGAGCAGTTGACTTTCTAGTGAAGCCTATACGTAAGAATGAACTTAAGAA
upper sequence: GLYMA11G15580.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g49460.3 (Oryza sativa), 3'ss of exon 5
gtaagtggcgtaccaaagttatactttttactaaatttaagtatatattttcaatgactattgctcatgtggtgttttgtttattgc-aca-tgttcaaatgcatg--cagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
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gtaagtagctttcctcaactctacagtacaattcttgtacaaa-atgttgcccttgtcatttatttactttctatgcttttagctgctacactgttgtggtttatgtgcagTGATGTCTTCAAATGATGCTATGGGTACAGTTTTTAAGTGTTTGTCAAAGGGCGCTGTTGACTTCTTAGTCAAGCCCATACGTAAGAATGAACTTAAGAA
upper sequence: GLYMA11G15580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G095727_T04 (Zea mays), 3'ss of exon 6
gtaagtggcgtaccaaagttatactttttactaaatttaagtatatattttcaatgactattgctcatgtggtgttttgtttattgcacatgttcaaat-gcatgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
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gtaagtagatttcctcaactaccct----aatgcacgtgaaattttatctt-gttaattgttgggtttaaatacttttagctgctacactgatgtgttttgcatgcagTGATGTCTACGAATGATTCTATGAGTATGGTGTTTAAGTGTTTGTCGAAGGGAGCAGTTGATTTCTTGGTAAAACCACTACGTAAGAATGAGCTTAAGAA
upper sequence: GLYMA11G15580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G005732_T02 (Zea mays), 3'ss of exon 2
----gtaagtggcgtaccaaagttatactttttactaaatttaagtatatattttcaatgactattgctcatgtggtgttttgtttattgcacatgt-tcaaatgcatgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
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gtaagtaactttcatctctacagtgtagttcatatcatgattaaaatgttgctttcatcatttatttagtcccaatgcttttagctgctacactgatgttgtttgtgtgcagTGATGTCTTCGAGTGATGCTATGAGTACAGTCTTTAAATGTTTGTCAAAAGGTGCTGTTGACTTTTTAGTCAAGCCTATACGTAAGAATGAACTTAAGAA
upper sequence: GLYMA11G15580.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G60100.3 (Arabidopsis thaliana), 3'ss of exon 3
gtaagtggcgtaccaaagttatactttttactaaatttaagtatat--attttcaatgactattgctcatgtggtgttttgtttattgcacatgttcaaatgcatgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
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---------gtatttac-tcaaatccttgattaaatttttgtttatccagcttcaatatgccatgctcagtttgtgtaactcaagatgtg-atgtttc--tttttgtagTGATGTCATCACATGATTCTATGGTTCTGGTCTTTAAGTGTTTGTCGAATGGTGCTGTTGATTTTCTCGTGAAACCCATTAGAAAGAACGAACTAAAGAA
upper sequence: GLYMA11G15580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0004g03650.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtggcgtaccaaagttatactttttact-aaatttaagtatatattttcaatgactattgctcatgtggtgttttgtttattgcacatgttcaaatgc--atgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
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gtaagtatcattttagtgttttcattttcatagaaatttaaggcttattttcctatcactcttgctgatttgatgcattgaatttccaccctgacgatctttttatgcagTGATGTCATCCCATGATTCTATGGGTATAGTCTTTAAGTGTCTGTCCAAGGGTGCAGTTGATTTTTTGGTGAAACCTATTCGAAAGAATGAACTTAAAAAMapped 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|192321789|gb|FK013195.1|FK013195EST: TTTGTGCAAGATCATGAGCCACAAAACTCTGAAGAATATTCCTGTGATTA TGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAG
genomic: TTTGTGCAAGATCATGAGCCACAAAACTCTGAAGAATATTCCTGTGATTAgtaagtggcg ... atgcatgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgactattgctcatgtggtgttttgtttattgcacatgttcaaatgcatgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
ttttgtttatt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtggcgtaccaaagttatactttttactaaatttaagtatatattttcaatgactattgctcatgtggtgttttgtttattgcacatgttcaaatgcatgcagTGATGTCATCTCATGATTCTATGGGTATAGTCTTTAAGTGTTTGTCAAAAGGCGCAGTTGATTTTTTAGTGAAACCAATTCGGAGGAATGAACTTAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA