Sequence
atgc intronic sequence ATGC exonic sequence...taaaatattatttatctactttctgtgccttttcttgtgcataaaatgttactttttttttcttccttttattcttacaagacattttggttgtttgcagATTCGTCTTTTCAAAAGCAATATCCTAAATTTTGGGACTTTGTAAAGAGGGCATGTACCAAGTTGATGAAAATTTTAGTTGCCTTTCAGGGCAGACATCC
Basic information
species | Glycine max |
transcript | GLYMA18G43420.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G43420.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G08960.1 (Arabidopsis thaliana), 3'ss of exon 7
taaaatattatttatctactttctgtgccttttcttgtgcataaaatgttactttttttttcttccttt-tattcttacaagacattttggttgtttgcagATTCGTCTTTTCAAAAGCAATATCCTAAATTTTGGGACTTTGTAAAGAGGGCATGTACCAAGTTGATGAAAATTTTAGTTGCCTTTCAGGGCAGACATCC
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-gtgagtttttttgtgtggtggaaactctttttcatgcatatgacctgtcagcacacatatatatgtatgtattgctaacttgtgtggagcctccatgcagATTCATCTTTTCAAAATCGAGATCCTAAATTCTGGGAGTTTGTAAAGAAGGCATGTGTCAAGCTGATGAAGGTGTTAGGTGCTATTCAAAGCAGGCATCC
upper sequence: GLYMA18G43420.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 6
-------taaaatattatttatctactttctgtgccttttcttg-tgcataaaatgttacttttttttt--cttccttttattcttacaagacattttggttgtttgcagATTCGTCTTTTCAAAAGCAATATCCTAAATTTTGGGACTTTGTAAAGAGGGCATGTACCAAGTTGATGAAAATTTTAGTTGCCTTTCAGGGCAGACATCC
||| | | |||||| | | |||| ||| || ||| | | | | ||||| | | || ||| ||| ||| | ||||||||||| || ||||||| || | |||||||||||||||||| |||||||||||||||| || |||||||| |||||||||| |||||| |||||||||
ggaaaaataagaagctgaacgactacttaatttttgtttttttggcaaattaaacgacattctatttttaacctttttgtatacttgcaatat----------tttgcagATTCATCCTTTCAAACACAGTGTCCTAAATTTTGGGACTTCATAAAGAGGGCATGTACTAAATTGATGAAGGTTTTAGTTGCATTTCAGACCAGACATCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttactttttttttcttccttttattcttacaagacattttggttgtttgcagATTCGTCTTTTCAAAAGCAATATCCTAAATTTTGGGACTTTGTAAAGAGGGCATGTACCAAGTTGATGAAAATTTTAGTTGCCTTTCAGGGCAGACATCC
ttcttac putative branch site (score: 2)
tttttttttcttcctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaatattatttatctactttctgtgccttttcttgtgcataaaatgttactttttttttcttccttttattcttacaagacattttggttgtttgcagATTCGTCTTTTCAAAAGCAATATCCTAAATTTTGGGACTTTGTAAAGAGGGCATGTACCAAGTTGATGAAAATTTTAGTTGCCTTTCAGGGCAGACATCC
- - - - - - - - - - -tctgtgc
- - - - - - - - - - - - - - - - - - -tgcataa