Sequence
atgc intronic sequence ATGC exonic sequenceATTCTTAACCCAAATCCAGAAGCAATGTCAAAGATCGTAACTGAAAATTCCAGTGAGGAGTTCTTGTATTCATTGAGTAACTACTGTGCTCTTCAGgtaaactgaagaatattttcagtatattcacctcagtgaaaatgaataaatatgcatgaaatataatccattcaatttatctaataacaatggtgaatta...
Basic information
species | Oryza sativa |
transcript | LOC_Os05g01470.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g01470.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G098039_T01 (Zea mays), 5'ss of exon 4
ATTCTTAACCCAAATCCAGAAGCAATGTCAAAGATCGTAACTGAAAATTCCAGTGAGGAGTTCTTGTATTCATTGAGTAACTACTGTGCTCTTCAGgtaaactgaagaatattttcagtatattcacctcagtgaaaatgaataaatatgcatgaaatataatccattcaatttatctaataacaatggtgaatta----
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ATTCTCAACCCAAATCCAGAGGCGATGTCAAAGATTGTAACAGAGAATTCAAGTGAGGAGTTCTTGTACGCCTTGAGTAACTACTGTGCTCTTCAGgttagttgtaggatgtctttcatatatacgtccctaggataatggtagccctcccattaacta--atttatgaatttca--tagtaatagaaatccatttccta
upper sequence: LOC_Os05g01470.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA12G28490.1 (Glycine max), 5'ss of exon 4
ATTCTTAACCCAAATCCAGAAGCAATGTCAAAGATCGTAACTGAAAATTCCAGTGAGGAGTTCTTGTATTCATTGAGTAACTACTGTGCTCTTCAGgtaaactgaagaatattttcagtatattcacct-cagtgaaaatgaataaatatgcatgaaatataatccattcaatttatctaataacaatggtgaatta----
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ATTCTTAATCCAAATCCAGATGCAATGTCTAAGATGATAACAGAAAACGCAAGCGAGGAATTCCTGCATTCATTGAGTAATTATTGTTCACTTCAGgtaaataagatccttttttttat-tggtcacctgctatttacttggaacttcatttatgtcctgca-tgctttcacgaga---aacgccaaatctgaacctcacc
upper sequence: LOC_Os05g01470.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA16G00210.1 (Glycine max), 5'ss of exon 4
ATTCTTAACCCAAATCCAGAAGCAATGTCAAAGATCGTAACTGAAAATTCCAGTGAGGAGTTCTTGTATTCATTGAGTAACTACTGTGCTCTTCAGgtaaactgaagaatattttcagtatattcacct-cagtgaaaatgaataaatatgcatgaaatataatccattcaatttatctaataacaatggtgaatta-----
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ATTCTTAATCCAAATCCAGATGCAATGTCTAAGATGATAACAGAAAATGCAAGCGAGGAATTCCTGCATTCATTGAGTAATTATTGTGCACTTCAGgtaaat--aagatcctttctttattggtcacctgctatttacttggaactttatttatctcctgca-tgttttca---tacgaaacaccaaatctgaacctcacca
upper sequence: LOC_Os05g01470.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv12s0035g01920.t01 (Vitis vinifera), 5'ss of exon 5
ATTCTTAACCCAAATCCAGAAGCAATGTCAAAGATCGTAACTGAAAATTCCAGTGAGGAGTTCTTGTATTCATTGAGTAACTACTGTGCTCTTCAGgtaaactgaagaatattttcagtatattcacctcagtgaaaatgaataaatatgcatgaaatataatccattcaatttatctaataacaatggtg----aatta----
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ATTCTCAACCCAAATCCTGATGCAATGTCTAAGATGATTACAGAAAATGCCAGCGAGGAATTTCTATATTCACTGAGTAATTATTGTGCACTTCAGgt----tggaagagattttt----tttttgataggatggaagagattttaactattttgaaattaattgatgtatgttagagaattgttctcatgctagaattttagtMapped 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|29630290|gb|CB635299.1|CB635299EST: ATTCCAGTGAGGAGTTCTTGTATTCATTGAGTAACTACTGTGCTCTTCAG GGTTTTGTTGAGGACCAATTTGGCCTTGGGTTGATTGCTCGGGCTGTTGAA
genomic: ATTCCAGTGAGGAGTTCTTGTATTCATTGAGTAACTACTGTGCTCTTCAGgtaaactgaa ... ttgcatccagGGTTTTGTTGAGGACCAATTTGGCCTTGGGTTGATTGCTCGGGCTGTTGAA
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTCTTAACCCAAATCCAGAAGCAATGTCAAAGATCGTAACTGAAAATTCCAGTGAGGAGTTCTTGTATTCATTGAGTAACTACTGTGCTCTTCAGgtaaactgaagaatattttcagtatattcacctcagtgaaaatgaataaatatgcatgaaatataatccattcaatttatctaataacaatggtgaatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG