Sequence
atgc intronic sequence ATGC exonic sequence...gtagatatcatggtagctagtttcagttgctcattgttaagtatccaatatactgccaatgcctttttatggtaatgtactgatgttttctaatctgtagGAGCTTTGGCATTTGACATGGAGTATGCACGGTGGTTGGAGGAGCATAACAAACATATAAATGAGTTGAGGGCTGCAGTTAATGCACACGCTGGTGATAA
Basic information
species | Oryza sativa |
transcript | LOC_Os01g59350.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g59350.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G125243_T02 (Zea mays), 3'ss of exon 10
----------gtagatatcatggtagctagtttcagttgctcattgttaagtatccaatatactgccaatgcctttttatggtaatgtactgatgttttctaatctgtagGAGCTTTGGCATTTGACATGGAGTATGCACGGTGGTTGGAGGAGCATAACAAACATATAAATGAGTTGAGGGCTGCAGTTAATGCACACGCTGGTGATAA
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gaactttacaggcagttttacccttgaaagcatcaga-atttgtttttttttatc-atcatagtgctagttcccttttatg--------tttatgttgtctgatctgtagGAGCTTTGGCATTTGACATGGAGTATGCACGCTGGTTGGAGGAGCACAATAAACATGTAAATGAGTTGAGGGCTGCAGTCAATGCACATGCTGGTGATAA
upper sequence: LOC_Os01g59350.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G019907_T01 (Zea mays), 3'ss of exon 4
gtagatatcatggtagctagtttcagttgct----cattgttaagtatccaatatactgcca--atgcctttttatggtaatgtactgatgttttctaatctgtagGAGCTTTGGCATTTGACATGGAGTATGCACGGTGGTTGGAGGAGCATAACAAACATATAAATGAGTTGAGGGCTGCAGTTAATGCACACGCTGGTGATAA
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----agaactttacaggcagttttacccttgaaagcattggaaattgttttttatttcatcataatgccagttcccttttatgt--tcatgttgtctgatctgtagGAGCTTTGGCATTTGACATGGAGTATGCACGCTGGTTGGAAGAGCACAACAAACATGTAAATGAGTTGAGGCTTGCAGTCAATGCACATGCCGGTGATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatatactgccaatgcctttttatggtaatgtactgatgttttctaatctgtagGAGCTTTGGCATTTGACATGGAGTATGCACGGTGGTTGGAGGAGCATAACAAACATATAAATGAGTTGAGGGCTGCAGTTAATGCACACGCTGGTGATAA
ttctaat putative branch site (score: 2)
tgttttct CT-rich tract
ttttctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatatcatggtagctagtttcagttgctcattgttaagtatccaatatactgccaatgcctttttatggtaatgtactgatgttttctaatctgtagGAGCTTTGGCATTTGACATGGAGTATGCACGGTGGTTGGAGGAGCATAACAAACATATAAATGAGTTGAGGGCTGCAGTTAATGCACACGCTGGTGATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG