Sequence
atgc intronic sequence ATGC exonic sequenceTCGTGAGTCATGTATATTCTCTGAGGGTTGCTATACAAAGGATCTGACAATTCTTGGAGTTGACCTGGCAAAAGTTGTAATAGTTGACAATACTCCACAGgtagcatgcctttttccgaatactgtatatgctttatatggacagatggaaatgtttccatttctatagttctagacttagacttggttgctagaaatat...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g43870.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g43870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G162347_T02 (Zea mays), 5'ss of exon 6
TCGTGAGTCATGTATATTCTCTGAGGGTTGCTATACAAAGGATCTGACAATTCTTGGAGTTGACCTGGCAAAAGTTGTAATAGTTGACAATACTCCACAGgtagcatgcctttttccgaatactgtatatgctttatatggacagatggaaatgtttccatttctatagttctagacttagacttggttgctaga--aatat
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TCGTGAATCTTGTGTATTCTCTGACGGTTGCTATACAAAGGACCTGACAATTCTGGGGATCGACTTGGCAAAAGTTGCAATAGTTGACAATACTCCACAGgta-caatccctttccaatatgtaaaaactattctg-atggacgcatttcccttgtcacttttatcttgatctctggtaagtctagtactctagtctagcac
upper sequence: LOC_Os01g43870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G068690_T03 (Zea mays), 5'ss of exon 6
TCGTGAGTCATGTATATTCTCTGAGGGTTGCTATACAAAGGATCTGACAATTCTTGGAGTTGACCTGGCAAAAGTTGTAATAGTTGACAATACTCCACAGgtagcatgcctttttc-cgaatactgtatatgctttatatggacagatggaaatgtt---tccatttctatagttctagacttagacttggttgctagaaatat
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TCGTGAATCTTGTATATTCTCTGACGGTTGCTATACAAAGGATCTGACAATCTTGGGGATCGACTTGGCGAAAGTTGCAATAGTTGACAATACTCCACAGgtagaatccctttccaatgtatacaaagtttgtgctttatcgattatctgttctggcagatgcatttcccttgtt---acttctatcttgatctctggtaagt-
upper sequence: LOC_Os01g43870.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA04G15970.1 (Glycine max), 5'ss of exon 7
TCGTGAGTCATGTATATTCTCTGAGGGTTGCTATACAAAGGATCTGACAATTCTTGGAGTTGACCTGGCAAAAGTTGTAATAGTTGACAATACTCCACAGgtagcatgcctttttccgaatactgtatatgctttatatggacagatggaaatgtttccatttctatagttctagacttagacttggttgctagaaatat
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CCGAGAATCATGCACCTGGAAAGATCGCCGCTGCGTCAAGGATTTGACAGTTCTTGGAATTGACCTGGCAAAAGTATGCATAATCGACAACACTCCAGAGgtattatttccttggtcttttgttgcaggttttcagttcattgtttcttccatgaaacaatatttttggtgttatatcaagtactgtattgtaggaatacMapped 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|7332372|gb|AU085718.1|AU085718EST: TTCTTGGAGTTGACCTGGCAAAAGTTGTAATAGTTGACAATACTCCACAG TTGCAAGTGGACAATGGTATACCAATAAAGAGCTGGTTTGATGACCCCTCA
genomic: TTCTTGGAGTTGACCTGGCAAAAGTTGTAATAGTTGACAATACTCCACAGgtagcatgcc ... ggttttccagTTGCAAGTGGACAATGGTATACCAATAAAGAGCTGGTTTGATGACCCCTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGTGAGTCATGTATATTCTCTGAGGGTTGCTATACAAAGGATCTGACAATTCTTGGAGTTGACCTGGCAAAAGTTGTAATAGTTGACAATACTCCACAGgtagcatgcctttttccgaatactgtatatgctttatatggacagatggaaatgtttccatttctatagttctagacttagacttggttgctagaaatat
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