Sequence
atgc intronic sequence ATGC exonic sequenceGGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTGTATGCCTTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGCTGAGCAGgtgatttttttataaattattactcagcaattaatatttttttcacctgtttaatctaacaccaatattatgcttttcttag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g01890.2 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g01890.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G109987_T05 (Zea mays), 5'ss of exon 10
GGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTGTATGCCTTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGCTGAGCAGgtgatttttttat-aaattattactc--agcaattaatatttttttcacctgtttaatctaacaccaatattatgcttttcttag
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GCCACCTTAGACAAATTGCTCAAGAAACAAGTGGAGAAGTAGTGTACGCCTTGGGAAGGCAACCTGCAGTCCTACGGACCTTTAGTCAAAGACTAAGCAGgtattttttttattgaactttaaccccaactcatgtacatcttgttgtctagtttaaaacataaaaattcttgttcttccattag
upper sequence: LOC_Os03g01890.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G042250_T03 (Zea mays), 5'ss of exon 11
GGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTGTATGCCTTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGCTGAGCAGgtgatttttttat-aaattattactcagcaattaatatttttttcacctgtttaatctaacac-caatattatgcttttcttag-----
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GCCACCTTAGACAAATTGCTCAAGAAACAAGTGGAGAAGTAGTGTATGCCTTGGGAAGGCAACCTGCAGTTCTACGGACCTTTAGTCAAAGACTAAGCAGgtaatttttttattgaactttaaccccgactttcatgtacatcttgc-tgtctagtttaaaacataaaagtctcttgttcttccattagMapped 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|58669023|gb|CK057709.1|CK057709EST: TTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGCTGAGCAG AGGCTTTAACGATGCCATTAGTGGTTTCAATGATGATGGGT
genomic: TTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGCTGAGCAGgtgatttttt ... cttttcttagAGGCTTTAACGATGCCATTAGTGGTTTCAATGATGATGGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTGTATGCCTTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGCTGAGCAGgtgatttttttataaattattactcagcaattaatatttttttcacctgtttaatctaacaccaatattatgcttttcttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG