Sequence
atgc intronic sequence ATGC exonic sequenceTGTTCGGGCTTCATCCAAGGGTTTGACACTTGAGCTTTGTCGGTGGATTGGCAAAGAGCCTGTAAAGGCAATTTTATTTGAGAAGATGAGAGATACAATGgtacaatatttcataccaggccattagagcagcatgcacacattgatcatatgtaccttgcctgaatagtataatcacacttattcctgtttgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g60040.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g60040.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G068755_T03 (Zea mays), 5'ss of exon 5
TGTTCGGGCTTCATCCAAGGGTTTGACACTTGAGCTTTGTCGGTGGATTGGCAAAGAGCCTGTAAAGGCAATTTTATTTGAGAAGATGAGAGATACAATGgtacaatatttcataccaggccattagagcagcatgcacacattgatcatatgtaccttgcctgaatagtataatcacacttattcctgtttgtag
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TGTCCGGGCTTCTTCTAAGGGTTTGACACTAGAGCTTTGTCGGTGGATTGGCAAAGACCCTGTAAAGTCTATTTTATTTGAGAAGATGAGAGATACTATGgtgcgttattt--tttcaaaattttaa-----catgtgtaattc-------tgttctatcactcaataaaataaccaatattctttgtgtttacag
upper sequence: LOC_Os01g60040.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G070126_T01 (Zea mays), 5'ss of exon 5
TGTTCGGGCTTCATCCAAGGGTTTGACACTTGAGCTTTGTCGGTGGATTGGCAAAGAGCCTGTAAAGGCAATTTTATTTGAGAAGATGAGAGATACAATGgtacaatatttcataccaggccattagagcagcatgcacacattgatcatatgtaccttgcctgaatagtataatcacacttattcctgtttgtag
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TGTCCGGGCTTCTTCTAAGGGTTTGACACTAGAGCTTTGTCGGTGGATTGGCAAAGACCCTGTAAAGTCTATTTTGTTCGAGAAGATGAGGGATACTATGgtgcgttat-----------ccttaaaagtttaacataagtagt-----cgtgttctatcacccattaatataaccaa--ttctttgtgtttacag
upper sequence: LOC_Os01g60040.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv10s0116g00490.t01 (Vitis vinifera), 5'ss of exon 5
TGTTCGGGCTTCATCCAAGGGTTTGACACTTGAGCTTTGTCGGTGGATTGGCAAAGAGCCTGTAAAGGCAATTTTATTTGAGAAGATGAGAGATACAATGgtacaatatttcataccaggccattagagcagcatgcacacattgatcatatgtaccttgcctgaatagtataatcacacttattcctgtt-tgtag-
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TGTTCGTGCATCCTCTAAAGGACTGACACTTGAGCTCTGTCGTTGGATAGGGAAAGACCCAGTGAAATCAATTTTGTTTGAGAAAATGCGGGATACAATGgtataataaatgtt--taaaatagcctgttttctttaacgaagt--ttatatttctatttcctgaaataaattattttttttttccttgtgacataagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|86490173|gb|CI132806.1|CI132806EST: GCAAAGAGCCTGTAAAGGCAATTTTATTTGAGAAGATGAGAGATACAATG AAAAAAGAATTGGAAGCAGAGCTAGCAAATGTCTCAGGAATCGCTAAGCCA
genomic: GCAAAGAGCCTGTAAAGGCAATTTTATTTGAGAAGATGAGAGATACAATGgtacaatatt ... ctgtttgtagAAAAAAGAATTGGAAGCAGAGCTAGCAAATGTCTCAGGAATCGCTAAGCCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTCGGGCTTCATCCAAGGGTTTGACACTTGAGCTTTGTCGGTGGATTGGCAAAGAGCCTGTAAAGGCAATTTTATTTGAGAAGATGAGAGATACAATGgtacaatatttcataccaggccattagagcagcatgcacacattgatcatatgtaccttgcctgaatagtataatcacacttattcctgtttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG