Sequence
atgc intronic sequence ATGC exonic sequencegtataagttgtcatggataccctttacatttttaatctgctccttgattttccttgatctagagattctcgaattttggcttactgtaatttgatgtgcataaattattttatattagCTTGCAAATCTGCATATGGAATTGAGACCTCACATACTTCGAAGAGTTATCAAAGATGTGGAGAAATCATTACCCCCCAAAATTGAACGTATCCTTAGGG
Basic information
species | Glycine max |
transcript | GLYMA02G45000.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os07g46590.1 (Oryza sativa), 3'ss of exon 4
gtataagttgtcatggataccctttacatttttaatctgctccttgattttccttgatctagag-attct-cgaattttggcttactgtaatttgatgtgcataaattattttatattagCTTGCAAATCTGCATATGGAATTGAGACCTCACATACTTCGAAGAGTTATCAAAGATGTGGAGAAATCATTACCCCCCAAAATTGAACGTATCCTTAGGG
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------------gtaaatatttttctctttcaaaatgtact------tttctcttgacctagactattctgtcagcattggacatccataactt----tgcttgatttatttt-tat-agCTTGCAAATCTTCACAAGGAATTGAGGCCTCATATTCTAAGACGAGTTATAAAAGATGTGGAGAAATCTTTACCTCCGAAAATTGAGCGGATTCTTCGTG
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G010342_T01 (Zea mays), 3'ss of exon 14
gtataagttgtcatggataccctttacatttttaatctgctccttgattttccttgatctagagattctcgaattttggcttactgtaatttgatgtgcataaattattttatattagCTTGCAAATCTGCATATGGAATTGAGACCTCACATACTTCGAAGAGTTATCAAAGATGTGGAGAAATCATTACCCCCCAAAATTGAACGTATCCTTAGGG
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--gtagtgttccaaatgaaagctttatatttactgaacatcatataatatg--ttggttttccgttgattgaaactca--taaccataacgtcttttgc-----cggttttcttatagCTTGCGAATCTGCATAAGGAATTGAGGCCTCATATTCTAAGGCGGGTTATAAAAGATGTCGAGAAGTCTTTACCTCCTAAAATTGAACGGATTCTACGTG
upper sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 15
----------gtataagt-tgtcatggataccctttacatttttaatctgctccttgattttc-cttgatctagagattctcgaattttg----gctta---ctgtaatttga---tgtgcataaattat-tttatatt---agCTTGCAAATCTGCATATGGAATTGAGACCTCACATACTTCGAAGAGTTATCAAAGATGTGGAGAAATCATTACCCCCCAAAATTGAACGTATCCTTAGGG
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gtacatttatggttatctacattacacaatttctttgcctcgctcatcacccaataaattttagtttcattcaacaaagtaccaatttcactacacctagaactggaatttaaatttattttttgtttttatttatttttgtagCTTGCAAATCTTCATATGGAATTGAGGCCCCATATTCTTCGAAGAGTTATCAAGGATGTAGAGAAGTCTTTGCCTCCAAAAATTGAACGTATTCTTAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattctcgaattttggcttactgtaatttgatgtgcataaattattttatattagCTTGCAAATCTGCATATGGAATTGAGACCTCACATACTTCGAAGAGTTATCAAAGATGTGGAGAAATCATTACCCCCCAAAATTGAACGTATCCTTAGGG
ttatttt CT-rich tract
taatttgatgtgcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataagttgtcatggataccctttacatttttaatctgctccttgattttccttgatctagagattctcgaattttggcttactgtaatttgatgtgcataaattattttatattagCTTGCAAATCTGCATATGGAATTGAGACCTCACATACTTCGAAGAGTTATCAAAGATGTGGAGAAATCATTACCCCCCAAAATTGAACGTATCCTTAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA