Sequence
atgc intronic sequence ATGC exonic sequenceGCCGCGCAAGCGGTTCTCCGGCGTCGCGCCGCCGGCGGCGCTCATCTTCTTCGTGCTGGTGTTCGCCGGCGGTGCAATCGTCACGCTTGATCACAAGGAGgtatgcaccttgatgcttctttacatcaagcacagagatagatgaatgataaaatcaattctctgaattctgaaagcttatgaatttgtttctgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g69050.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g69050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G038512_T03 (Zea mays), 5'ss of exon 2
GCCGCGCAAGCGGTTCTCCGGCGTCGCGCCGCCGGCGGCGCT---CATCTTCTTCGTGCTGGTGTTCGCCGGCGGTGCAATCGTCACGCTTGATCACAAGGAGgtatgcaccttgatgcttctttacatcaagcacagagatagatgaatgataaaatcaattctctgaattc-tgaaagcttatg-aatttgtttctgcag
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-------AAGCGGTTCTTCAGCGTCGCGCCGCCGGCCACGCTGGTCTTCTTCTTCGTGCTGATATTCGTCGCCGGTGCAATTGTTACGCTTGATCATAAGGAGgtgcg-----ttgtgacttgtgactgacagc-tagaggcatgttg-tggtctc-tgagttctgaaagttcatccattcctgcgcaacttgtttctgcag
upper sequence: LOC_Os01g69050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G038512_T04 (Zea mays), 5'ss of exon 2
GCCGCGCAAGCGGTTCTCCGGCGTCGCGCCGCCGGCGGCGCT---CATCTTCTTCGTGCTGGTGTTCGCCGGCGGTGCAATCGTCACGCTTGATCACAAGGAGgtatgcaccttgatgcttctttacatcaagcacagagatagatgaatgataaaatcaattctctgaattc-tgaaagcttatg-aatttgtttctgcag
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---GCAGAAGCGGTTCTTCAGCGTCGCGCCGCCGGCCACGCTGGTCTTCTTCTTCGTGCTGATATTCGTCGCCGGTGCAATTGTTACGCTTGATCATAAGGAGgtgcg-----ttgtgacttgtgactgacagc-tagaggcatgttg-tggtctc-tgagttctgaaagttcatccattcctgcgcaacttgtttctgcag
upper sequence: LOC_Os01g69050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G013481_T01 (Zea mays), 5'ss of exon 2
GCCGCGCAAGCGGTTCTCCGGCGTCGCGCCGCCGGCGGCGCT---CATCTTCTTCGTGCTGGTGTTCGCCGGCGGTGCAATCGTCACGCTTGATCACAAGGAGgta---tgcaccttgatgcttctttacatcaagcacagagatagatgaatgataaaatcaattctctgaattctgaaagcttatg---aatttgtttctgcag
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---GCAGAAGCGATTCTTCAGCGTCGCGCCGCCGGCGGCGCTGGTCTTCTTCTTCGTGCTGATATTCGTCGCCGGTGCAGCCGTCACGCTAGATCATAAGGAGgtgcgttgtgacttgtgacagctaggaggcatgttcttcagctggtgtgtggtctc-tgaatcctgaaagttcaattcattcctgcacaacttgtttgtgcagMapped 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|29673508|gb|CB669783.1|CB669783EST: TCGTGCTGGTGTTCGCCGGCGGTGCAATCGTCACGCTTGATCACAAGGAG AATTTGTNCA-TTCTTCAGTTA
genomic: TCGTGCTGGTGTTCGCCGGCGGTGCAATCGTCACGCTTGATCACAAGGAGgtatgcacct ... gtttctgcagAATTTGT-CAATTCTTCAGTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCGCGCAAGCGGTTCTCCGGCGTCGCGCCGCCGGCGGCGCTCATCTTCTTCGTGCTGGTGTTCGCCGGCGGTGCAATCGTCACGCTTGATCACAAGGAGgtatgcaccttgatgcttctttacatcaagcacagagatagatgaatgataaaatcaattctctgaattctgaaagcttatgaatttgtttctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG