Sequence
atgc intronic sequence ATGC exonic sequenceACACTTCGCCGCCTTGCCCAAAATCGTGAAGCTGCTAGGAAAAGCCGTTTAAGAAAGAAGgtgtgtttgtaactttgtatgatcttgaaatgttttatctgatattgttgttgaatttgaacttctactgagctacatatatattttctttcatcatctc...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g59350.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g59350.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G019907_T01 (Zea mays), 5'ss of exon 2
ACACTTCGCCGCCTTGCCCAAAATCGTGAAGCTGCTAGGAAAAGCCGTTTAAGAAAGAAGgtgtgtttgtaactttgtatgatcttgaaatgttttatctgatattgttgttgaatttgaacttctactgagctacatatatattttctttcatcatctc---
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ACACTTCGGCGTCTTGCCCAAAATCGTGAAGCTGCCCGGAAAAGCCGTTTACGAAAGAAGgtgaatt-ggaacattattgattttttgctcgtttcagattccatttacgttcatctt--ctcatcacctagtttggtactagtcttgccgctacatttttct
upper sequence: LOC_Os01g59350.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G125243_T01 (Zea mays), 5'ss of exon 6
ACACTTCGCCGCCTTGCCCAAAATCGTGAAGCTGCTAGGAAAAGCCGTTTAAGAAAGAAGgtgtgtttgtaactttgtatgatcttgaaatgtt--ttatctgatattgttgttgaatttgaacttctactgagctacatatatattttctttcatcatctc
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ACACTTCGGCGTCTTGCCCAAAATCGTGAAGCTGCCAGGAAAAGCCGATTACGAAAAAAGgta-atttggaagttggaagattactgaatctttgcttctttcagatt-ccatttatgttcatcctatcatcatcacctagtgtggtaccagtcttgctgca
upper sequence: LOC_Os01g59350.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv08s0007g05170.t01 (Vitis vinifera), 5'ss of exon 6
ACACTTCGCCGCCTTGCCCAAAATCGTGAAGCTGCTAGGAAAAGCCGTTTAAGAAAGAAGgtgtgttt---------gtaactttgtat--gatcttgaaat-gttttatctgatattgttgttgaatttgaacttctactgagctacata-tatattttctt-tcatcatctc-------------------------------------------------------------------------------------
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ACATTACGCCGGCTTGCTCAAAATCGTGAAGCTGCCAGAAAAAGCCGATTAAGGAAAAAGgtaggtcctgttatgaaatgagttcacatttgatgtagacatcattttcactgttat-gttgcacaaactgagtttctaa-gtgttggatagtgtattttttggttatggtttattctgtctcattttcactgttatgttacacaaacctgggagtgcattgtgtgcactaaatccctttttttggtttctctctttagMapped 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|33793551|gb|CF322658.1|CF322658EST: GCCTTGCCCAAAATCGTGAAGCTGCTAGGAAAAGCCGTTTAAGAAAGAAG GCATATATCCAAAACCTTGAGAGTAGCAGATTGAAACTTACTCAGATAGAG
genomic: GCCTTGCCCAAAATCGTGAAGCTGCTAGGAAAAGCCGTTTAAGAAAGAAGgtgtgtttgt ... ttttctgcagGCATATATCCAAAACCTTGAGAGTAGCAGATTGAAACTTACTCAGATAGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACACTTCGCCGCCTTGCCCAAAATCGTGAAGCTGCTAGGAAAAGCCGTTTAAGAAAGAAGgtgtgtttgtaactttgtatgatcttgaaatgttttatctgatattgttgttgaatttgaacttctactgagctacatatatattttctttcatcatctc
- - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG