Sequence
atgc intronic sequence ATGC exonic sequenceGCTACATAACCAAGGAGCTCATGGACACTGAGAACCCACCGCTCGTTTTCCCGAATGGCTATGTTTATAGCACCAAGGTAAAAACTACGAGCTGAACCAGgtcattacggtattatgccgatctgcgagttcatacttgaaaccgtcgttcgtagtgccacactgataatccgttgctggctgttcattctatcctacctcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g06760.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g06760.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G177026_T02 (Zea mays), 5'ss of exon 6
-----------------------GCTACATAACCAAGGAGCTCATGGACACTGAGAACCCACCGCTCGTTTTCCCGAATGGCTATGTTTATAGCACCAAGGTAAAAACTACGAGCTGAACCAGgtcattacggtattatgccgatctgcgagttcatacttgaaaccgtcgtt-cgtagtgccacactgataatccgttgctggctgttcattctatcctacctcag
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ACAGCACCACTCGAAGCTTGTTTGTTACATCACCAAGGAGCTCATGGACACTGAGAACCCGCCTCAGGTTCTGCCGAACGGCTATGTCTACAGTGAGAAGgtacacactcaaacctgtgct--gttgttgtt-tgtaaagc--atc----agttcag--ttcaaaccatcttggcttagcgct-tgctgtatatttgcccccag-----------------------
upper sequence: LOC_Os05g06760.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA10G43910.1 (Glycine max), 5'ss of exon 6
-----------------------GCTACATAACCAAGGAGCTCATGGACACTGAGAACCCACCGCTCGTTTTCCCGAATGGCTATGTTTATAGCACCAAGGTAAAAACTACGAGCTGAACCAGgtcattacggtattatgccgatctgcgagttcatacttgaaaccgtcgttcgtagtgccacactgataatccgttgctggctgttcattctatcctacctcag
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GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCACCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtcc---ctgttattctagttat-tcttttagatgtt----ccatgtataaag-catattttgtttattattttttgctcctttgcag--------------------------------------
upper sequence: LOC_Os05g06760.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA20G38660.1 (Glycine max), 5'ss of exon 6
-----------------------GCTACATAACCAAGGAGCTCATGGACACTGAGAACCCACCGCTCGTTTTCCCGAATGGCTATGTTTATAGCACCAAGGTAAAAACTACGAGCTGAACCAGgtcattacggtattatgccgatctgcgagttcatacttgaaaccgtcgttcgtagtgccacactgataatccgttgctggctgttcattctatcctacctcag
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GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtcc---ctgttattttagatat-tcttttagatgtt----ccatgtataaag-catattttgtttattattttttgctcctttgcag--------------------------------------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|88427766|gb|CI551708.1|CI551708EST: CCGAATGGCTATGTTTATAGCACCAAGGTAAAAACTACGAGCTGAACCAG GCTCTTGATGAGATGGCCAAGAAGAATGGAGGCAAGGTTACATGCCCTCGG
genomic: CCGAATGGCTATGTTTATAGCACCAAGGTAAAAACTACGAGCTGAACCAGgtcattacgg ... cctacctcagGCTCTTGATGAGATGGCCAAGAAGAATGGAGGCAAGGTTACATGCCCTCGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTACATAACCAAGGAGCTCATGGACACTGAGAACCCACCGCTCGTTTTCCCGAATGGCTATGTTTATAGCACCAAGGTAAAAACTACGAGCTGAACCAGgtcattacggtattatgccgatctgcgagttcatacttgaaaccgtcgttcgtagtgccacactgataatccgttgctggctgttcattctatcctacctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA