Sequence
atgc intronic sequence ATGC exonic sequenceGCTTTCCTGAAGCATATTGATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAGgtaatcctcacgtacttacagttttggttttataagttggtttggtatccatgtgtcaagcacatgatgatacaattttatgaatttagtttttgtttat...
Basic information
species | Oryza sativa |
transcript | LOC_Os04g56480.2 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g56480.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G044011_T02 (Zea mays), 5'ss of exon 9
GCTTTCCTGAAGCATATTGATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAGgtaatcctcacgtacttacagttttg-----gttttataagttggtttggt-atccatgtgtcaagcacatgatgatacaattttatgaatttagtttttgtttat
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GCATTTCTGAAACACATTGATTTTGAAGTTGTCCAGTGTACTGTAATTGCAAGCCCAGGTTTTACGAAGgtaatcctcacttgcttaaaagggaaacaatgtactataaagtagctcctttatttttttctcgaatacgttggagagctacgt-atcattatattaatag-----
upper sequence: LOC_Os04g56480.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA20G36200.1 (Glycine max), 5'ss of exon 10
GCTTTCCTGAAGCATATTGATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAGgtaatcctcacgtacttacagttttggttttataagttggtttggtatccatgtgtcaagcacatgatgatacaattttatgaatttagtttttgtttat--------
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GCTTTCTTGAAACATATAGATTTCAACGTGGTTCGTTGTGCTGTAATTGCAAGTCCAGGATTTACAAAGgtaagt---aattgttccctgtttgtgttatttgggcttcattcgtggtga-atattta-caaatt-tgatacaatgt-gtgagtgt-gtctgcatgtatgcattact
upper sequence: LOC_Os04g56480.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA10G31310.1 (Glycine max), 5'ss of exon 10
GCTTTCCTGAAGCATATTGATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAGgtaatcctcacgtacttacagttttggttttataagttggtt--tggtatccatgtgtcaagcacatgatgatacaattttatgaattta-gtttttgtttat
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GCTTTCTTGAAACATATAGATTTCAATGTGGTTCGTTGTGCTGTAATTGCAAGTCCAGGATTTACAAAGgtaagt---aattattccctgtttgtgttatttgggcttattcgtggtgaatatttacaaatttgatacaagtgcaagtgtgtctgtatgtgtgtattattatMapped 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|87006648|gb|CI295031.1|CI295031EST: ATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAG GATCAGTTCCGCGATTATATGCATCTTGAAGCTGCACGGCGAGACTTAAGA
genomic: ATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAGgtaatcctca ... atcttaacagGATCAGTTCCGCGATTATATGCATCTTGAAGCTGCACGGCGAGACTTAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTTTCCTGAAGCATATTGATTTTGAAGTAGTCCAATGTGCTGTAATTGCAAGCCCAGGTTTTACTAAGgtaatcctcacgtacttacagttttggttttataagttggtttggtatccatgtgtcaagcacatgatgatacaattttatgaatttagtttttgtttat
- - - - - - - - - - - TTGAAG