Sequence
atgc intronic sequence ATGC exonic sequenceGCTGCGAGCTTTGGCGGAACAAACATCGATCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtaccattgatcttcaacttcccatgaatcagattgttttcgctcaaatttctgcacttccacatgttttaatatgtaattaagtgtatttaggaattag...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g36950.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g36950.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AC207342.3_FGT008 (Zea mays), 5'ss of exon 3
GCTGCGAGCTTTGGCGGAACAAACATCGATCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtaccattgatcttcaacttcccatgaatcagattgttttcgctcaaatttctgcacttc-cacatgttttaatatgtaattaagtgtatttaggaattag
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GCCGCCAGCTTCGGCGGGACCAACATCGACCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtagtacgcttcaatccagtccccttcttccaattaatgcagctccagcctctcctctcctctcctctcccgtcatggcggacgatcgatcagctcaacc-
upper sequence: LOC_Os01g36950.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G071154_T01 (Zea mays), 5'ss of exon 3
GCTGCGAGCTTTGGCGGAACAAACATCGATCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtaccattgatcttcaacttcccatgaatcagattgt----tttcgctcaaatttctgcacttccacatgttttaatatgtaattaagtgtatttaggaattag
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GCCGCGAGCTTCGGCGGGACCAACATCGACCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTTCCTGCGCAGgtacc-ctactgtactgtctgcttcgatccacagtctagtactctagtctagcagccatggcggcggcggcggcggcgggtgatcgatcagctcaacgtac---
upper sequence: LOC_Os01g36950.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA20G16100.1 (Glycine max), 5'ss of exon 3
GCTGCGAGCTTTGGCGGAACAAACATCGATCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtac----cat-tgatcttcaacttcccatgaatcagattgttttcgctca-aatttctgcacttccacatgttttaatatgtaattaag-tgtatttaggaattag
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GCTGCAAGTTTTGGAGGATCCAATATTGATCCAACGGCTTGGGAGGACAAGAAGTGCCCTGGTGAATCTCGTTTCCCTGCTCAGgtatatatcatctcatctccaa--tcaaattaattttattatatctatgcacaaattatgctaatattaattttataa-atttaattaaaatgtactgatgct----
upper sequence: LOC_Os01g36950.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv02s0025g01720.t01 (Vitis vinifera), 5'ss of exon 3
GCTGCGAGCTTTGGCGGAACAAACATCGATCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtaccattgatcttcaacttcccatga---atcagattgttt---tcgctcaaatttctgcacttccacatgttttaatatgtaattaagtgtatttaggaattag
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GCTGCAAGCTTTGGAGGAACAAACATTGATCCAACTGCTTGGGAGGACAAGAAGTGCCCTGGCGAATCACGCTTCCCTGCTCAGgt----ctgttctccaatcttacttgatctgccaaactgtgtagttgggctactagtcatcaaaggcaaatttggtttggggtctttgtatatggccatgaatt--
upper sequence: LOC_Os01g36950.2 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ22023 (Selaginella moellendorffii), 5'ss of exon 3
GCTGCGAGCTTTGGCGGAACAAACATCGATCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtaccattgatcttcaacttcccatgaatcagattgttttcgctcaaatttctgcacttccacatgttttaatatgtaattaagtgtatttaggaattag
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GCTGCGAGTTTTGGGGGCTCAAACATAGATCCTACTGCGTGGGAAGACAAGAAGTGTCGTGGAGAATCTCGGTTCCCTGCACAGgtttgtcttcacttctttctcatttgcttc---tcgagcgtgtgtgaggatccgggcttaactttctctcgctttgtcctctccag--------------
upper sequence: LOC_Os01g36950.2 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ24245 (Selaginella moellendorffii), 5'ss of exon 3
GCTGCGAGCTTTGGCGGAACAAACATCGATCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtaccattgatcttcaacttcccatgaatcagattgttttcgctcaaatttctgcacttccacatgttttaatatgtaattaagtgtatttaggaattag
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GCAACAAGTTTTGGAGGCTCCAACATCGATGCAACTGCGTGGGAGGACAAGAAGTGCCGCGGAGAGTCGAGATTCCCAGCTCAGgt----ttgtctctcgttttctaggagaatagaaagctttttcttg---ttcttgagctgcaagagctacaaaggaaaacccatcgtgatcccatacag-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|9884513|gb|BE607346.1|BE607346EST: CGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAG GTGAAGGTTGCGACGAGGAAGATCTATGACCCGCTGGAGGAGGACGCCTTC
genomic: CGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtaccattga ... atgccatcagGTGAAGGTTGCGACGAGGAAGATCTATGACCCGCTGGAGGAGGACGCCTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTGCGAGCTTTGGCGGAACAAACATCGATCCGACGGCGTGGGAGGACAAGAAGTGCCCCGGCGAGTCGCGCTTCCCTGCACAGgtaccattgatcttcaacttcccatgaatcagattgttttcgctcaaatttctgcacttccacatgttttaatatgtaattaagtgtatttaggaattag
- - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - AGAAGT