Sequence
atgc intronic sequence ATGC exonic sequenceTGAAGGTGGTGCAACCTGGGCCTTTGAAGTTGGTACGCGATCTATGACATGTCCAATCATAGTAGAGGATCTCAATCCACCCCGTCAAATGCTTGTGGAGgtatttgctacttctctgttttcttagttcttgtaaatgctactgcacggtaattctgagtgatgattcgaacatgttgtaattgttcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g64560.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g64560.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA12G09990.1 (Glycine max), 5'ss of exon 3
TGAAGGTGGTGCAACCTGGGCCTTTGAAGTTGGTACGCGATCTATGACATGTCCAATCATAGTAGAGGATCTCAATCCACCCCGTCAAATGCTTGTGGAGgtatttgctacttctctgttttcttagttcttgtaaatgctactgcacggtaattc--tgagtgatgattcgaacatgttgtaattgttcag------------
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TGAGGGAGGGGCTACATGGGCATATGAGGTTGGTGCACAATCAATGGTTTGTCCAATCATTGTTGAGGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaataagtgatgct------tcataattttttaaaatacatttattcctcaaatggatttgtgttggctctaacctgttgtgtttgctcggttattcttgcag
upper sequence: LOC_Os01g64560.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv06s0009g00440.t01 (Vitis vinifera), 5'ss of exon 8
TGAAGGTGGTGCAACCTGGGCCTTTGAAGTTGGTACGCGATCTATGACATGTCCAATCATAGTAGAGGATCTCAATCCACCCCGTCAAATGCTTGTGGAGgtatttgctacttctctgttttcttagttcttgtaaatgctactgcacggtaattctgagtgatgattcgaacatgttgtaattgttcag-------------------------------------
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TGAGGGAGGAGCAACATGGGCATTTGAAGTTGGCTCACAGTCTATGGTCTGCCCTATAATAGTTGAAGATCTGAATCCACCTCGTCAAATGCTTGTGGAGgtagtgacatattgattttaacctcagaaagttgggtttcagtttc----taattagcatttgcatctctattttgttctttctttttatattttcaacttttaatgctttatttcgtgggtgacagMapped 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|86892214|gb|CI332246.1|CI332246EST: GTCCAATCATAGTAGAGGATCTCAATCCACCCCGTCAAATGCTTGTGGAG ATGCTTTGTAAAGAGAGAGGAATCTTCTTGGAAATAGCTGATCAAATTAGA
genomic: GTCCAATCATAGTAGAGGATCTCAATCCACCCCGTCAAATGCTTGTGGAGgtatttgcta ... aattgttcagATGCTTTGTAAAGAGAGAGGAATCTTCTTGGAAATAGCTGATCAAATTAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAAGGTGGTGCAACCTGGGCCTTTGAAGTTGGTACGCGATCTATGACATGTCCAATCATAGTAGAGGATCTCAATCCACCCCGTCAAATGCTTGTGGAGgtatttgctacttctctgttttcttagttcttgtaaatgctactgcacggtaattctgagtgatgattcgaacatgttgtaattgttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG