Sequence
atgc intronic sequence ATGC exonic sequenceCGGAACGCCGAGCTGAAGATCGTCGACCCGGACACCGGCTTGTCACTCCCGCGCAACCAGCCGGGGGAGATTTGCATCAGGGGAAAACAAATCATGAAAGgtacacacactgcccaaattcattcacaattttttgagtttactttcattcgaaaaaaaacggagcaaattttgactgggtcgaagctgactcgtcgccggttcttggcgcgttgcgtgtgcgtacgtgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os08g34790.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g34790.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ13708 (Selaginella moellendorffii), 5'ss of exon 1
CGGAACGCCGAGCTGAAGATCGTCGACCCGGACACCGGCTTGTCACTCCCGCGCAACCAGCCGGGGGAGATTTGCATCAGGGGAAAACAAATCATGAAAGgtacacacactgcccaaattcattcacaattttttgagtttact-ttcattcgaaaaaaa-acggagcaaattttgactgggtcgaagctgactcgtcgccggttcttggcgcgttgcgtgtgcgtacgtgcag
|| || ||||| ||||| || |||||||| |||||| ||| || ||||||||||||||||||||||| ||||||||||| || ||||||||||||| | | ||| |||| | || | || |||| || ||| || ||
CGCAATGCCGACGCCAAGATTGTGGACCCGGAGACCGGCGCGTCGCTGCCGCGCAACCAGCCGGGGGAGATGTGCATCAGGGGCCCCCAGGTCATGAAAGgtacttaatc------aatccatttgccatcccggaaacctaaaattcacgtaaatgaaatactcag-------------------------------------------------------------------
upper sequence: LOC_Os08g34790.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ29005 (Selaginella moellendorffii), 5'ss of exon 1
CGGAACGCCGAGCTGAAGATCGTCGACCCGGACACCGGCTTGTCACTCCCGCGCAACCAGCCGGGGGAGATTTGCATCAGGGGAAAACAAATCATGAAAGgtacacacactgcccaaattcattcacaattttttgagtttactttcattcgaaaaaaaacggagcaaattttgactgggtcgaagctgactcgtcgccggttcttggcgcgttgcgtgtgcgtacgtgcag
|| || ||||| ||||| || |||||||| |||||| ||| || ||||||||||||||||||||||| ||||||||||| || ||||||||||||| | | ||| |||| | | | || | || ||| || | ||
CGCAATGCCGACGCCAAGATTGTGGACCCGGAGACCGGCGCGTCGCTGCCGCGCAACCAGCCGGGGGAGATGTGCATCAGGGGCCCCCAGGTCATGAAAGgtacttaatc------aatccatttgccaccccggaaacctaaaatt-cacgtaaatgaaatgctcag----------------------------------------------------------------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|86502493|gb|CI145126.1|CI145126EST: GCGCAACCAGCCGGGGGAGATTTGCATCAGGGGAAAACAAATCATGAAAG GATACCTGAACAACCCGGAGGCGACCGAGAAGACGATCGACCAAGGACGGG
genomic: GCGCAACCAGCCGGGGGAGATTTGCATCAGGGGAAAACAAATCATGAAAGgtacacacac ... gtacgtgcagGATACCTGAACAACCCGGAGGCGACCGAGAAGACGATCGA-CAAGGACGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGGAACGCCGAGCTGAAGATCGTCGACCCGGACACCGGCTTGTCACTCCCGCGCAACCAGCCGGGGGAGATTTGCATCAGGGGAAAACAAATCATGAAAGgtacacacactgcccaaattcattcacaattttttgagtttactttcattcgaaaaaaaacggagcaaattttgactgggtcgaagctgactcgtcgccggttcttggcgcgttgcgtgtgcgtacgtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT