Sequence
atgc intronic sequence ATGC exonic sequenceAGAAGGTGAAATTTACTCAGCAGAAGATGCTGATAGTGCAGAATATGATGGTGCTCCAAGAAAAAGGGAGGGAGCTTTCTATGTGTGGACTAATAAGGAGgtacgtccatcatccatgaactattcttactagtgcatgtgaacattttgttacataaatacctcttcccagtccatagaaggtgggcttaatgatttaa...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g70950.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g70950.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA19G39560.2 (Glycine max), 5'ss of exon 9
AGAAGGTGAAATTTACTCAGCAGAAGATGCTGATAGTGCAGAATATGATGGTGCTCCAAGAAAAAGGGAGGGAGCTTTCTATGTGTGGACTAATAAGGAGgtacgtccatcatccatgaact-attcttactagtgcatgtg-aacattttgttacataaatacctcttcccagtccatagaaggtgggcttaatgatttaa
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AGAAGGTGAAATTTTTTCAGCAGAGGATGCTGACAGTGCAGAGACTGAAGGAGCTGCAAGAAAAAAGGAAGGAGCCTTTTACATATGGACAGGCAAAGAGgtgtttcattcatgccctatttgactttccttaatatatttttaatggataataacattg-taggtccataaagaatatacaattcttcattatcgtcccc-
upper sequence: LOC_Os01g70950.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA03G36910.1 (Glycine max), 5'ss of exon 9
AGAAGGTGAAATTTACTCAGCAGAAGATGCTGATAGTGCAGAATATGATGGTGCTCCAAGAAAAAGGGAGGGAGCTTTCTATGTGTGGACTAATAAGGAGgtacgtccatcatccatgaactattcttactagtgcatgtgaacattttgttacataaatacctcttcccagtccatagaaggtgggcttaatgatttaa----------
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AGAAGGTGAAATTTTTTCAGCAGAGGATGCTGACAGTGCAGAGACTGAAGGAGCTGCAAGAAAAAAGGAAGGAGCCTTTTACATATGGACAAGCAAAGAGgtatttc----atccatgtcctatttg----agtttccttaatatatttcttatggataataacattgtaggtccatgaaaaatatac--aattctccattatggtcccc
upper sequence: LOC_Os01g70950.2 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv07s0104g01480.t01 (Vitis vinifera), 5'ss of exon 9
AGAAGGTGAAATTTACTCAGCAGAAGATGCTGATAGTGCAGAATATGATGGTGCTCCAAGAAAAAGGGAGGGAGCTTTCTATGTGTGGACTAATAAGGAGgtacgtccatcatccatgaact--attcttactagtgcatgtgaacattttgttacataaatacctcttcccagtccatagaaggtgggcttaatgatttaa----
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AGAAGGTGAAATATTTTCAGCTGAGGATGCTGACAGTGCTGAATCTGAAGATGCTGCAAGAAAAAAGGAAGGAGCCTTCTACATATGGACCAGTAAAGAGgtttgttccagttaggtacactgcattgcggacactatatgaggaga----gaaatttcaa-actttaatttgatttgta-atcatgttagtaatgatgtgacttcMapped 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|58672383|gb|CK061069.1|CK061069EST: GTGCTCCAAGAAAAAGGGAGGGAGCGTTCTATGTGTGGACTAATAAGGAG ATTGAAGACACACTTGGGGAGAATTCAGAGCTATTCAAGAATCATTACTAT
genomic: GTGCTCCAAGAAAAAGGGAGGGAGCTTTCTATGTGTGGACTAATAAGGAGgtacgtccat ... cttcacacagATTGAAGACACACTTGGGGAGAATTCAGAGCTATTCAAGAATCATTACTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAGGTGAAATTTACTCAGCAGAAGATGCTGATAGTGCAGAATATGATGGTGCTCCAAGAAAAAGGGAGGGAGCTTTCTATGTGTGGACTAATAAGGAGgtacgtccatcatccatgaactattcttactagtgcatgtgaacattttgttacataaatacctcttcccagtccatagaaggtgggcttaatgatttaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG