Sequence
atgc intronic sequence ATGC exonic sequenceATTGGTACATTAATATATGCACGAGTGGTGAAAGCAAATAGCATCATGAACCCAGAGCTCTCGTGCATGGATGgtaaaactattatcttacaactcagcattgggattttctattttatactaatccattagaagtactcaagtacgtcttttgttattctgtcactcctttc...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g47256.3 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g47256.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G802854_T01 (Zea mays), 5'ss of exon 7
ATTGGTACATTAATATATGCACGAGTGGTGAAAGCAAATAGCATCATGAACCCAGAGCTCTCGTGCATGGATGgtaaaactattatcttacaactcagcattgggattttctattttat-actaatccattagaagtactcaagtac--gtcttttgttattctgtcactcctttc
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ATTGGTACATTAATATATGCTCGAGTGGTGAAAGCAAATAGTATCATGAATCCCGAGCTCTCATGCATGGATGgtaagttttttagttttcagctcaatgtccattttccttaattgatcatcagaacttcagaagta-tggagtaccaaattttcttcgtcttagcaaatata--
upper sequence: LOC_Os01g47256.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G540589_T01 (Zea mays), 5'ss of exon 5
ATTGGTACATTAATATATGCACGAGTGGTGAAAGCAAATAGCATCATGAACCCAGAGCTCTCGTGCATGGATGgtaaaactattatcttacaactcagcattgggattttctattttatactaatccattagaagtactcaag--tacgtcttttgttattctgtcactcctttc--------------------------------------------------------------------------
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ATTGGTACATTAATATATGCTCGAGTGGTGAAAGCAAATAGTATCATGAATCCCGGGCTTTCATGCAGAGATGgtaat-tttttagcttgcagctcagtgtctactttccttaattttctatcagaagtatggaataccaaatgttctagcatatgtaacctcattgcttgtgagatgatactcagtatggatcgtttgtttttggttttatctgattgttctttttccgtatgttcctatttttcaag
upper sequence: LOC_Os01g47256.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G173989_T01 (Zea mays), 5'ss of exon 7
ATTGGTACATTAATATATGCACGAGTGGTGAAAGCAAATAGCATCATGAACCCAGAGCTCTCGTGCATGGATGgtaaaactattatcttacaactcagcattgggattttctattttat-actaatccattagaagtactcaagtac--gtcttttgttattctgtcactcctttc
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ATTGGTACATTAATATATGCTCGAGTGGTGAAAGCAAATAGTATCATGAATCCCGAGCTCTCATGCATGGATGgtaagttttttagttttcagctcagtgtccattttccttaattgatcatcagaacttcagaagta-tggagtaccaaattttcttcgtcttagcaaatata--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|58653630|gb|CK042310.1|CK042310EST: AGTGGTGAAAGCAAATAGCATCATGAACCCAGAGCTCTCGTGCATGGATG CTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTG
genomic: AGTGGTGAAAGCAAATAGCATCATGAACCCAGAGCTCTCGTGCATGGATGgtaaaactat ... tattttacagCTACTGGGAAAGCAGCCGAATTTGGTCAACTAAAAGATGGCTATATGTTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGGTACATTAATATATGCACGAGTGGTGAAAGCAAATAGCATCATGAACCCAGAGCTCTCGTGCATGGATGgtaaaactattatcttacaactcagcattgggattttctattttatactaatccattagaagtactcaagtacgtcttttgttattctgtcactcctttc
- - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA