Sequence
atgc intronic sequence ATGC exonic sequenceATCATGGTTGTTCCAAAGAGCAATGTCAGCAAGGCCGCAGATCGATGTTTCCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATTTTGAGTCGATGCAGgtaacctcagttatttatgagatataccatcatttcagatttttttttatctgattagttatttcatacaatggccag
Basic information
species | Oryza sativa |
transcript | LOC_Os08g32630.2 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g32630.5 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM5G851815_T02 (Zea mays), 5'ss of exon 14
ATCATGGTTGTTCCAAAGAGCAATGTCAGCAAGGCCGCAGATCGATGTTTCCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATTTTGAGTCGATGCAGgtaacctcagttatttatgagatataccatcatttcag--attttttt----ttatctgattagttatttcatacaatggccag
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ATCATGGTTGTTCCAACGAGCGATGTCAGTAAGGCCACATGTCAATGTTTCACCAACCTTTATCAATGAGCTTCTCTTTGCTAATTTTCAGTCAATGCAGgtaacttaaggtaccta-aaagtacaccattgcatcaataattctattcatcttatatgaattttgatttccttcaatg-tcag
upper sequence: LOC_Os08g32630.5 (Oryza sativa), 5'ss of exon 13
lower sequence: GLYMA02G43820.1 (Glycine max), 5'ss of exon 8
ATCATGGTTGTTCCAAAGAGCAATGTCAGCAAGGCCGCAGATCGATGTTTCCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATTTTGAGTCGATGCAGgtaacctcagttatttatgagatataccatcatttcagatttttttttatctgattagttatttcatacaatggccag------------------------
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TTCGTGGTTGTTCCAAAGAGCAATGTCAGCAAAGAAACAATCCAATGTTCCTGCAGATTTTATTAATGAACTTCTTTATACGAATTTTAGTTGTATGCAGgtagtttatttctctcatgactcagattattatttt--gttctttcttactttattattctgcttttggagatataaggtgggttggatggttaagggagaa
upper sequence: LOC_Os08g32630.5 (Oryza sativa), 5'ss of exon 13
lower sequence: GLYMA14G05100.1 (Glycine max), 5'ss of exon 15
ATCATGGTTGTTCCAAAGAGCAATGTCAGCAAGGCCGCAGATCGATGTTTCCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATTTTGAGTCGATGCAGgtaacctcagttatttatgagatataccatcatttcagatttttttttatctgattagtt--atttcatacaatggccag----
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TTCATGGTTGTTCCAAAGAGCAATGTCAGCAAAGAAACAGTCCAATGTTCCCGCAGATTTTATTAATGAACTTCTATATACCAATTTTAGTTGTATGCAGgtagtttatttctctcatgactcagattataattttgttctttcttacttactgttgcttctattttatctatcacttctgcag
upper sequence: LOC_Os08g32630.5 (Oryza sativa), 5'ss of exon 13
lower sequence: AT2G32640.1 (Arabidopsis thaliana), 5'ss of exon 14
ATCATGGTTGTTCCAAAGAGCAATGTCAGCAAGGCCGCAGATCGATGTTTCCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATTTTGAGTCGATGCAGgta-acctcagttatttatga-gatataccatcatttcagatttttttttatctgattagttatttcatacaatggccag--
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ATCATGGCTGTTTCAAAGAGCAATGTCTGCAAAGCAACAGCTCGATGTTTCCCGTGGCTTCACCAATGAGCTTCTCCATGTAAATTTCAGTTGCATGCAGgtatagtacacttttctaaaccgggaaatgagagtttcgaactttggct--tctaagtaatggtttcatatttctcttgtagMapped 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|29642655|gb|CB647662.1|CB647662EST: CCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATTTTGAGTCGATGCAG AAACTTGGGGATTCAGTACTTCGGCCATTTCTCCAG
genomic: CCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATTTTGAGTCGATGCAGgtaacctcag ... caatggccagAAACTTGGGGATTCAGTACTTCGGCCATTTCTCCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCATGGTTGTTCCAAAGAGCAATGTCAGCAAGGCCGCAGATCGATGTTTCCCCAACTTTTATCAATGAGCTTCTCTTTGCTAATTTTGAGTCGATGCAGgtaacctcagttatttatgagatataccatcatttcagatttttttttatctgattagttatttcatacaatggccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT