Sequence
atgc intronic sequence ATGC exonic sequenceAACTTCTTGGTGGATATAAAAGGTCCTAATTTGGCCTTTTTACCAGTTCTTGCATTTGAAGGTGGTACCAGGAGAAATATTCCAAAGTTCGAGgtatggcagtgactaatgggtcatcatcattcatcaatggttgttgattttgtttccccaactcaattctttcataggtttttgtcatgaagttcactgt...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g47256.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g47256.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G540589_T01 (Zea mays), 5'ss of exon 4
AACTTCTTGGTGGATATAAAAGGTCCTAATTTGGCCTTTTTACCAGTTCTTGCATTTGAAGGTGGTACCAGGAGAAATATTCCAAAGTTCGAGgtatggcagtgactaatgggtcatcatcattcatcaatggttgt-tgattttgtt--tccccaactcaattctttcataggtttttgtcatgaagttcactgt
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AACTTTTTGGTAGACATAAAGGGTCCTAATTTGCCCTTCCTACCGGTGCTTGCATTTGAAGGTGGTACAAGGAGAAACATACCAAAGTTTGAGgtaagatactggatcatctgaactttctagtattgtttagtttcatagtgttgtcagtctctatacttaaagtttgaaatgtgtataggataggccacat---
upper sequence: LOC_Os01g47256.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G173989_T01 (Zea mays), 5'ss of exon 6
AACTTCTTGGTGGATATAAAAGGTCCTAATTTGGCCTTTTTACCAGTTCTTGCATTTGAAGGTGGTACCAGGAGAAATATTCCAAAGTTCGAGgtatggcagtgactaatgggtcatcatcattcatcaatggttgttgattttgtttccccaac-tcaattctttcataggtttttgt-catgaagttcactgt--
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AACTTTTTGGTAGACATAAAGGGTCCTAATTTGGCCTTTCTACCAGTACTTTCATTTGAAGGCGGTACAAGGAGAAACATACCCAAGTTCGAGgtaagacactggatcatttga----actttctagcattgtttagtttcatagttttgtcagcctttatactttaagtgtgaaatgtgtgtgtagttcttaacat
upper sequence: LOC_Os01g47256.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G802854_T01 (Zea mays), 5'ss of exon 6
AACTTCTTGGTGGATATAAAAGGTCCTAATTTGGCCTTTTTACCAGTTCTTGCATTTGAAGGTGGTACCAGGAGAAATATTCCAAAGTTCGAGgtatggcagtgactaatgggtcatcatcattcatcaatggttgttgattttgtttccccaa-ctcaattctttcataggtttttgt-catgaagttcactgt--
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AACTTTTTGGTAGACATAAAGGGTCCTAATTTGGCCTTTCTACCAGTACTTTCATTTGAAGGCGGTACAAGGAGAAACATACCCAAGTTCAAGgtaagacactggatcatttga----actttctagcattgtttagtttcatagttttgtcaatctttatactttaagtgtgaaatgtgtgtgtagttcttaacatMapped 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|58653630|gb|CK042310.1|CK042310EST: CAGTTCTTGCATTTGAAGGTGGTACCAGGAGAAATATTCCAAAGTTCGAG ATTGGTACATTAATATATGCACGAGTGGTGAAAGCAAATAGCATCATGAAC
genomic: CAGTTCTTGCATTTGAAGGTGGTACCAGGAGAAATATTCCAAAGTTCGAGgtatggcagt ... tctcctgcagATTGGTACATTAATATATGCACGAGTGGTGAAAGCAAATAGCATCATGAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACTTCTTGGTGGATATAAAAGGTCCTAATTTGGCCTTTTTACCAGTTCTTGCATTTGAAGGTGGTACCAGGAGAAATATTCCAAAGTTCGAGgtatggcagtgactaatgggtcatcatcattcatcaatggttgttgattttgtttccccaactcaattctttcataggtttttgtcatgaagttcactgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA