Sequence
atgc intronic sequence ATGC exonic sequencegtatgaatgtgtattctttgattctattaagatgtttgatttaatatttactattcaaccaattaaactttccttttgtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGAGAACAAACCTTGAACCAGCTGCTCACT
Basic information
species | Glycine max |
transcript | GLYMA14G37090.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G37090.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G163193_T02 (Zea mays), 3'ss of exon 5
gtatgaatgtgtat-tctttgattctattaagatgtttgatttaatatttactattcaaccaattaaactttccttttgtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGAGAACAAACCTTGAACCAGCTGCTCACT
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---gtaacctacacatccatgatacgatttagcttcatgtattgaattgtatgcttaatccctttccgtctgtcttgtctttgtagATTGATGCTGTTGCAAAAAGCCGTGATGGTCGATATCGCATTGTCAGTAATGATGAACGTGAGCAGACACTAAACCAATTGCTCACG
upper sequence: GLYMA14G37090.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgaatgtgtattctttgatt--ctattaagatgtttgatttaatatttactatt-caaccaattaaactttccttttgtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGAGAACAAACCTTGAACCAGCTGCTCACT
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gtgtgaatacaaaatcagtgttagattacctgctactttgtatcgatgtaaatctttacaaatgtatttgtgtttctttcaatttcagATAGATGCTGTCGCGAAAAGCCGTGATGGTAAATTCAGAATGGTCAGCAATGATGAAAGGGAGCAAACCTTGAATCAATTGCTCACT
upper sequence: GLYMA14G37090.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G47060.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgaatgtgtattc----tttgattctattaag-atgtttgattta-atatttactattcaaccaattaaactttccttttgta-tgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGAGAACAAACCTTGAACCAGCTGCTCACT
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gttagaataggtagtcgatgtcagattacctccggtatattaaacctctgggcatcttaaacaagattttctatttgcctctcatgctccagATAGATGCTGTGGCAAAAAGCCGTGATGGTAAATTCCGAATGGGGAGCAACGATGAAAGGGAGCAAACTTTAAATCAGTTGCTCACT
upper sequence: GLYMA14G37090.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 5
-gtatgaatgtgtattctttgat-tctattaagatgtttgatttaatatttactattcaaccaattaa-actttccttttgtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGAGAACAAACCTTGAACCAGCTGCTCACT
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gttagaaccgtggaatttttgttgtgtattcatgttcagcattttgagcttcctggtgcgttgttagtcatgtttttcttcttcgcagATAGATGCTGTAGCAAAAAGCCGTGATGGTAGATTTCGCATTGTTAGCAATGATGAGCGAGAGCAAACCTTGAACCAGTTGCTTACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgtttgatttaatatttactattcaaccaattaaactttccttttgtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGAGAACAAACCTTGAACCAGCTGCTCACT
atttaat putative branch site (score: 4)
ctttccttttgtat putative PPT
atttaatatttactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaatgtgtattctttgattctattaagatgtttgatttaatatttactattcaaccaattaaactttccttttgtatgcagATAGATGCTGTGGCTAAAAGTCGTGATGGTAAATTTCGCATTGTCAGCAATGATGAACGAGAACAAACCTTGAACCAGCTGCTCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT