Sequence
atgc intronic sequence ATGC exonic sequenceTAGACTAGTTATCGTAAGAGAGGAGGCTCGAAATATGATGGGAGGTGGCCTGTTAGATGAAAGAAATGACCGTGGTTTCACAACGCTTCCTGAGGCAGAGgtattatttgcacttgttggggcttgggacacggggaattacattcttagaatctctacccatctagttctatacatagaatatcttttttactaacatt...
Basic information
species | Oryza sativa |
transcript | LOC_Os11g23790.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g23790.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G079452_T02 (Zea mays), 5'ss of exon 5
TAGACTAGTTATCGTAAGAGAGGAGGCTCGAAATATGATGGGAGGTGGCCTGTTAGATGAAAGAAATGACCGTGGTTTCACAACGCTTCCTGAGGCAGAGgtatt-----atttgcacttgttggggcttgggacacggggaat-tacattcttagaatctctacccatctagttctatacatagaatatcttttttactaacatt
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AAGATTAGTTATAGTAAGAGAAGAAGCTCGGAATATGATGGGAGGTGGCCTGTTAGATGAGAGAAATGATCGTGGTTTGACTACCCTCCCTGAGGCAGAGgtacttttaaacttggaaatcttaatgtgacatgcatggtagatgtgtattccatgactaattgcaaaa-tatccttttataagggtcttcagtctctttg-----
upper sequence: LOC_Os11g23790.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT5G48470.1 (Arabidopsis thaliana), 5'ss of exon 5
TAGACTAGTTATCGTAAGAGAGGAGGCTCGAAATATGATGGGAGGTGGCCTGTTAGATGAAAGAAATGACCGTGGTTTCACAACGCTTCCTGAGGCAGAGgtattatttgcacttgttggggcttgggacacggggaattacattcttagaatctctacccatctagttctatacatagaatatcttttttactaacatt
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GAGGCTTGTTTTGATTAGAGAGGAAGCCCGGAACATGATGGGAGGAGGTATACTTGATGAAAGAAATGACCGAGGTTTCACTACTCTTCCTGAATCAGAGgtttgtgtgacaaactattatgtccatgatgctg-----tgtttgtgaacattttttaaacattgagatacagtgacttgttgcttgatcgtcaaacag-
upper sequence: LOC_Os11g23790.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv00s0333g00020.t01 (Vitis vinifera), 5'ss of exon 5
TAGACTAGTTATCGTAAGAGAGGAGGCTCGAAATATGATGGGAGGTGGCCTGTTAGATGAAAGAAATGACCGTGGTTTCACAACGCTTCCTGAGGCAGAGgtat-tatttgcacttgttggggcttgggacacgggga-attacattcttagaatctctacccatctagttctatacatagaatatcttttttactaacatt
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AAGACTGGTTTTGATCAGAGAGGAAGCCCGGAATATGATGGGAGGTGGAATACTAGATGAAAGGAATGACCGTGGTTTGAATACCCTCCCCGAATCAGAGgtttgtattcttaatttagggtatcttgaatctaattataggacggccagatgattctcattggcctaactttgtttttagtgaaatatattaatgaaaa--Mapped 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|87018909|gb|CI256794.1|CI256794EST: TAGATGAAAGAAATGACCGTGGTTTCACGACGCTTCCTGAGGCAGAG GTGAACTTCTTGAGCAAGCTGGTTGCTCTCAAACCTGGGAAAGCATTGGAG
genomic: TAGATGAAAGAAATGACCGTGGTTTCACAACGCTTCCTGAGGCAGAGgtattatttg ... gaatgaacagGTGAACTTCTTGAGCAAGCTGGTTGCTCTCAAACCTGGGAAAGCATTGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAGACTAGTTATCGTAAGAGAGGAGGCTCGAAATATGATGGGAGGTGGCCTGTTAGATGAAAGAAATGACCGTGGTTTCACAACGCTTCCTGAGGCAGAGgtattatttgcacttgttggggcttgggacacggggaattacattcttagaatctctacccatctagttctatacatagaatatcttttttactaacatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA