Sequence
atgc intronic sequence ATGC exonic sequenceCCATGGAGGCTGTGAAGGTTCGAGTCCAAACTCAGCCAGGATTTGCTCGGTGCCTGACGGATGGGTTTCCGAAGATTGTCCAATCTGAAGGTGCCTTTGGgtatagatactgcatttcttgtatacaattgtgacttctgttcaaagtttatttggggacatcctataatacaatgtgcgaatttcag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g15690.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g15690.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G118208_T01 (Zea mays), 5'ss of exon 2
CCATGGAGGCTGTGAAGGTTCGAGTCCAAACTCAGCCAGGATTTGCTCGGTGCCTGACGGATGGGTTTCCGAAGATTGTCCAATCTGAAGGTGCCTTTGGgtatagatactgcatttcttgtatacaattgtgacttctgttcaaagtttatttgggg--aca-tcctataatacaatgtgcgaatttcag
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CCATGGAGGCTGTCAAAATTCGGGTCCAGACACAACCGGGATTTGCTCGCTGCCTGGTCGATGGGCTTCCGAAGATTGTCCAATCTGAAGGTGCCTTTGGgtacagatactgcatgtcttgtatg-atctgtg-ttattgttcaaggtttttggggagcaacaatcttttaacactgggtgcaaatttcag
upper sequence: LOC_Os03g15690.2 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv14s0068g01260.t01 (Vitis vinifera), 5'ss of exon 2
CCATGGAGGCTGTGAAGGTTCGAGTCCAAACTCAGCCAGGATTTGCTCGGTGCCTGACGGATGGGTTTCCGAAGATTGTCCAATCTGAAGGTGCCTTTGGgtatagatactgcatttcttgtatacaattgtgacttctgttcaaagtttatttggggacatcctataat-----acaatgtgcgaatttcag--
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CCATGGAGGCAGTGAAGGTCCGGGTTCAAACTCAGCCTGGTTTTGCTAGAGGTCTGTCAGATGGATTTCCCAAGTTTGTTAAATCCGAAGGTGCCTTGGGgtatgcctatcaaactt--tgacttc--tttcctccccaattcgccactt-tatagtactaagctataactactgattatgtgaaaactttgcagMapped 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|58682611|gb|CK071298.1|CK071298EST: TGCCTGACGGATGGGTTTCCGAAGATTGTCCAATCTGAAGGTGCCTTTGG GCTTTATAAAGGACTACTTCCTCTCTGGGGTCGCCAAGTTCCTT
genomic: TGCCTGACGGATGGGTTTCCGAAGATTGTCCAATCTGAAGGTGCCTTTGGgtatagatac ... cgaatttcagGCTTTATAAAGGACTACTTCCTCTCTGGGGTCGCCAAGTTCCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCATGGAGGCTGTGAAGGTTCGAGTCCAAACTCAGCCAGGATTTGCTCGGTGCCTGACGGATGGGTTTCCGAAGATTGTCCAATCTGAAGGTGCCTTTGGgtatagatactgcatttcttgtatacaattgtgacttctgttcaaagtttatttggggacatcctataatacaatgtgcgaatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG