Sequence
atgc intronic sequence ATGC exonic sequenceTGGTCCAACAGTGCTAGTTTTGGCACCGACAAGGGAGCTTGCAACTCAGATTTTGGAAGAAGCTGTGAAATTTGGCAGATCATCAAGAATTTCTTCCACGgtcagttcattctactatgatacatatgttattgttgggctactggcataaaacagtattagataatagatacacaggtttaattggctttatgttttgt...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g36860.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g36860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G078826_T02 (Zea mays), 5'ss of exon 3
TGGTCCAACAGTGCTAGTTTTGGCACCGACAAGGGAGCTTGCAACTCAGATTTTGGAAGAAGCTGTGAAATTTGGCAGATCATCAAGAATTTCTTCCACGgtcagttcattctac----tatgatacatatgttattgttgggctactggcataaaacagtattagat-aatagatacacaggtttaattggctttatgttttgt
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TGGCCCAACAGTGCTAGTTTTGGCCCCAACAAGGGAACTTGCAACACAGATTCTGGATGAAGCTGTGAAATTTGGAAGATCTTCAAGAATTTCTTGCACGgtttgttccctctatctgttttaatatacaaatgatcatgaatata-tgtctaaccaggatattaattcaaaaaatatttcgaaaaaaaaaactattgacc----
upper sequence: LOC_Os01g36860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G077125_T01 (Zea mays), 5'ss of exon 3
TGGTCCAACAGTGCTAGTTTTGGCACCGACAAGGGAGCTTGCAACTCAGATTTTGGAAGAAGCTGTGAAATTTGGCAGATCATCAAGAATTTCTTCCACGgtcagttcattctactatgatacatatgttattgttgggctactggcataaaacagtattagataatagatacacagg---tttaattggctttatgttttgt
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TGGTCCAACAGTGCTAGTTTTGGCCCCAACAAGGGAACTTGCAACGCAGATTCTGGATGAAGCTATGAAATTTGGAAGATCATCTAGAATTTCTTGCACGgtttgttctgtctgtatctattttaatatacaaat--ggtcac-gattttatgttttaccaggttattaattcaaaaaaccttctgaggaatgtttaaactgt
upper sequence: LOC_Os01g36860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: AT3G01540.3 (Arabidopsis thaliana), 5'ss of exon 5
TGGTCCAACAGTGCTAGTTTTGGCACCGACAAGGGAGCTTGCAACTCAGATTTTGGAAGAAGCTGTGAAATTTGGCAGATCATCAAGAATTTCTTCCACGgtcagttcattctactatgatacatatgttattgttgggctactggcataaaacagtattag---ataatagatacacaggtttaattggctttatgttttgt
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GGGCCCAACAATCTTGGTATTGTCTCCAACGAGAGAGCTGGCCACACAAATCCAAGAAGAAGCTGTTAAATTTGGGAGGTCATCAAGAATTTCGTGTACGgtatgtagaagtctctg-aacttgtaaagtttcaacatgctacttgtgaagtatatgtctaacgtatgccaaatgtgt-ggtcttattatctctgt-ttcag-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|29680158|gb|CB676433.1|CB676433EST: TTTTGGAAGAAGCTGTGAAATTTGGCAGATCATCAAGAATTTCTTCCACG TGTCTATATGGTGGTGCTCCAAAAGGCCCCCAGCTAAGAGATTTGGATAGA
genomic: TTTTGGAAGAAGCTGTGAAATTTGGCAGATCATCAAGAATTTCTTCCACGgtcagttcat ... ctgtttttagTGTCTATATGGTGGTGCTCCAAAAGGCCCCCAGCTAAGAGATTTGGATAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTCCAACAGTGCTAGTTTTGGCACCGACAAGGGAGCTTGCAACTCAGATTTTGGAAGAAGCTGTGAAATTTGGCAGATCATCAAGAATTTCTTCCACGgtcagttcattctactatgatacatatgttattgttgggctactggcataaaacagtattagataatagatacacaggtttaattggctttatgttttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA