Sequence
atgc intronic sequence ATGC exonic sequence...cagcttacatgccacctgataattctattttgttgcctttcatatcttattttcatttctgcgtatttaaatcttatctattgcaacttttgtggtgcagATTATTTTGTGACGAAATGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCG
Basic information
species | Oryza sativa |
transcript | LOC_Os03g45770.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g45770.2 (Oryza sativa), 3'ss of exon 8
lower sequence: AT1G60995.1 (Arabidopsis thaliana), 3'ss of exon 9
------------------------------------------------------------------------------------cagctt---acatgccacct-gataattctatt--ttgttgcctttcatatct-tattttcatttctgcgtat---ttaaatcttatctattgcaacttttgtggtgcagATTATTTTGTGACGAAATGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCG
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gtttgtcattttctgtcacggaaacagcatatgttgaaaactttcccttgaatctcgcaagtctatcgattatgagcgttacgttggattggaagatcttaccttggctgctttattagctcttgcaacttttatctgtagtttggtgtaagcatttactttaagagtaatattttaatgccggtgta-tgcagATTACTTGGTGACGAAATGTGGTGTCCTAATGATGTCACTTTTTGTGTTTTTCACAACCACAATGTCTGTATCATTCACATTGCGAGAGACACAAACTCG
upper sequence: LOC_Os03g45770.2 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv12s0034g02140.t01 (Vitis vinifera), 3'ss of exon 8
--cagcttacatgccacctgataattctattttgttgcctttcatatcttattttcatt-tctgcgtatttaaatcttatctattgcaacttttgtggtgcagATTATTTTGTGACGAAATGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCG
| ||| ||||| | | ||||| || ||| || | | | | | | | || | | | ||| | || | ||||||| ||| | ||||| || |||||||| ||| | ||||| || |||||||| ||||||||||| ||||| ||||||||||| | |||||||| ||| ||||
tatattttaaatgccgg--agttgctttattt-attaattttaatttttgggtaaaaaaatgttttgagacaagttatgctttttggttttgtttttgtgcagACTATCTGGTGACCAAGTGTGGTGTGCTTATGATGTCGCTATTTGTTTTCTTCACAACCACAATGTCGGTTTCATTTACATTAAGAGAGACACAAACCCG
upper sequence: LOC_Os03g45770.2 (Oryza sativa), 3'ss of exon 8
lower sequence: EFJ29169 (Selaginella moellendorffii), 3'ss of exon 8
cagcttacatgccacctgataattctattttgttgcctttcatatcttattttcatttctgcgtatttaaatcttatctattgcaacttttgtggtgcagATTATTTTGTGACGAAATGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCG
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----------------------------------------------gtaagctttccttcatgcgtttgtgctgtactcac-atagtttttgt-----agATTATGTTGTTTTCAAGTTCGGGGTGCTGATAATGTCATTATTTGTGTTTTTCACCACAACAATGTCTGTTTCGTTCACCCTCAGAGAAACGCAAGCTCGMapped 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|157650552|gb|EX450186.1|EX450186EST: TGATCTCAGTTACGGACATGAACCACCAGCAGGTCCAACAAGATTTGGAG ATTATTTTGTGACGAAATGTGGTGTAC
genomic: TGATCTCAGTTACGGACATGAACCACCAGCAGGTCCAACAAGATTTGGAGgtttgtatag ... tgtggtgcagATTATTTTGTGACGAAATGTGGTGTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttattttcatttctgcgtatttaaatcttatctattgcaacttttgtggtgcagATTATTTTGTGACGAAATGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCG
cttttgt CT-rich tract
tatttaaatcttatct TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagcttacatgccacctgataattctattttgttgcctttcatatcttattttcatttctgcgtatttaaatcttatctattgcaacttttgtggtgcagATTATTTTGTGACGAAATGTGGTGTACTTTTAATGTCACTCTTTGTTTTTTTCACAACCACCATGTCTGTTTCATTTACCCTGAGAGAGACGCAATCCCG
- - -tacatgc
- - - - - - cacctga
- - - - - - - - - - - - - - - tgttgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcaact