Sequence
atgc intronic sequence ATGC exonic sequence...atcaagaagctatattacaatggatggagctgttattttttgcaaatactttgactactaaatatgcatgcatgttgatgaaccatggtgttggtggcagGTGAGGGAGAGGTGTAAAAGGGAGTGGACAATGTTCCAGAGTCGGTTGGCAAATGCAGAAGACGCATATTACAGGGCCGTGGGAGGGGATATGTTTAATT
Basic information
species | Glycine max |
transcript | GLYMA08G14040.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 14
atcaagaagctatattacaatggatggagctg----ttattttttgcaaatactttgactactaaatatg-catgc-atgttgatgaaccatggtgt-tggtg--gcagGTGAGGGAGAGGTGTAAAAGGGAGTGGACAATGTTCCAGAGTCGGTTGGCAAATGCAGAAGACGCATATTACAGGGCCGTGGGAGGGGATA--TGTTTAATT
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gtaacaaagctttttatctctctctcgtgctgagaattatgtgttgtgaggaagacgcataacttgtgcaacaagcgacgtcaatttgttttgttatgtggttttgcagGTGAGGGATAGATGCAAAAAGGAATGGACAATGTTCCAGAGTAGAATGGCTAACGCAGAGAAGGATTATTTCAAATCCTTACAAGTAGAAGGCTCCTCAA--
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 14
atcaagaagctatattacaatggatggagctgttattttttgcaaatactt--tgactactaaatatgcatgcatgttgatgaaccatggtgttggtggcagGTGAGGGAGAGGTGTAAAAGGGAGTGGACAATGTTCCAGAGTCGGTTGGCAAATGCAGAAGACGCATATTACAGGGCCGTGGGAGGGGATATGTTTAATT
| || | | ||| | | || ||||||| | | | || || ||| | | | | || | | | | | | | ||||| |||||||||||||||||||||| |||||||| ||||| | ||| || | ||||| ||| | |||||||||| || ||||| || ||||
-ttaaatttattttttattgggtttatagttgttattgtattgcattaattggtgattccaataattgtttacgggatatttctgtctt-tattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCGAAAAAGCATATTACAAGGAGATGGGAATTAATCCTACCAATT
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv17s0000g02780.t01 (Vitis vinifera), 3'ss of exon 2
atcaagaagctatattacaatggat--ggagctgttattttttgcaaatactt--tgactactaaatatgcatgcatgttgatgaaccatggtgttggtggcagGTGAGGGAGAGGTGTAAAAGGGAGTGGACAATGTTCCAGAGTCGGTTGGCAAATGCAGAAGACGCATATTACAGGGCCGTGGGAGGGGATATGTTTAATT
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---taaaatttattttttattgggtttatagtttttattgtattgcattaattggtgattccaataattgtttacgggatatttctgtctt-tattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCGAAAAAACATATTACAAGGAGATGGGAATTAATCCTACCAATT
upper sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv14s0036g00790.t01 (Vitis vinifera), 3'ss of exon 2
atcaagaagctatattacaatggat--ggagctgttattttttgcaaatactt--tgactactaaatatgcatgcatgttgatgaaccatggtgttggtggcagGTGAGGGAGAGGTGTAAAAGGGAGTGGACAATGTTCCAGAGTCGGTTGGCAAATGCAGAAGACGCATATTACAGGGCCGTGGGAGGGGATATGTTTAATT
| || ||| || | ||| | || ||||||| | | | || || ||| | | | | || | | | | | | | ||||| |||||||||||||||||||||| |||||||| ||||| | ||| || | ||||| || | |||||||||| || ||||| || ||||
---taaaatttattttttattgggtttatagttgttattgtattgcattaattggtgattccaataattgtttacgggatatttctgtctt-tattggttccagGTGAGGGAGAGGTGTAAAAAAGAGTGGACCATGTTTCGAGTTCGCATGACCAATGCCAAAAAAGCATATTACAAGGATATGGGAATTAATCCTACCAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactttgactactaaatatgcatgcatgttgatgaaccatggtgttggtggcagGTGAGGGAGAGGTGTAAAAGGGAGTGGACAATGTTCCAGAGTCGGTTGGCAAATGCAGAAGACGCATATTACAGGGCCGTGGGAGGGGATATGTTTAATT
tactaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcaagaagctatattacaatggatggagctgttattttttgcaaatactttgactactaaatatgcatgcatgttgatgaaccatggtgttggtggcagGTGAGGGAGAGGTGTAAAAGGGAGTGGACAATGTTCCAGAGTCGGTTGGCAAATGCAGAAGACGCATATTACAGGGCCGTGGGAGGGGATATGTTTAATT
- - - - - - - - - - - gatggag
- - - - - - - - - - - - - - - - - - -ttttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatggt