Sequence
atgc intronic sequence ATGC exonic sequenceCTTTGGTATAAGGTTGGAGAATGTTCTGATAGTTCAAGATGCCAATACTAAATTTAATTTTGGAGATAAGGGTTATTTGGCATTTGAACATATAACATGGgtaagcattgattgttcaatctctaaattattaactctcactttggtaactgttcttctctttgtttcattcattttggactatatcttgtaaccagaag...
Basic information
species | Oryza sativa |
transcript | LOC_Os11g33340.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g33340.1 (Oryza sativa), 5'ss of exon 16
lower sequence: GRMZM2G169095_T01 (Zea mays), 5'ss of exon 15
CTTTGGTATAAGGTTGGAGAATGTTCTGATAGTTCAAGATGCCAATACTAAATTTAATTTTGGAGATAAGGGTTATTTGGCATTTGAACATATAACATGGgtaagcattgattgttcaatctctaaattattaactctcactttggtaactgttcttctctttgtttcattcattt-tggactatatc-ttgtaaccagaag
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CTTTGGTATAAGATTGGAGAATGTACTTATTTGCAAAGACGCCAATGCTAAGTTTAATTTTGGAGATAAAGGTTATTTGGCATTTGAACATATAACATGGgtaagcactaattgtttgattgctttcttct--acatgagtatagaagagtgtctgactatattcagtgtgcactcatgctcaatattattgttatatgatc
upper sequence: LOC_Os11g33340.1 (Oryza sativa), 5'ss of exon 16
lower sequence: PP1S96_73V6.1 (Physcomitrella patens), 5'ss of exon 15
CTTTGGTATAAGGTTGGAGAATGTTCTGATAGTTCAAGATGCCAATACTAAATTTAATTTTGGAGATAAGGGTTATTTGGCATTTGAACATATAACATGGgtaagcattgattgttcaatctctaaattattaactctcactttggtaactgttcttctctttgtttcattcattttgga---ctatatcttgtaaccagaag----
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CTTTGGAGTTAGGATTGAGAACGTCCTGATTGTGAAGGAGGCACAAGCGAAGCACAATTTTGGAGATAAGGGCTATCTTGCTTTTGAACACATAACTTGGgta---atagaatatgcctacttc----catcatttctgtgtcttgtaacagtttcttttgccaaggagggaaatttaaagctttatgctcagtaagtgataagtctMapped 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|218487565|gb|FG947568.1|FG947568EST: AATTTAATTTTGGAGATAAGGGTTATTTGGCATTTGAACATATAACATGG GCTCCGTACCAGACAAAGCTGATTGACGCCACTTTGCTGGCCCCTGCCGAG
genomic: AATTTAATTTTGGAGATAAGGGTTATTTGGCATTTGAACATATAACATGGgtaagcattg ... tattatgcagGCTCCGTACCAGACAAAGCTGATTGACGCCACTTTGCTGGCCCCTGCCGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTGGTATAAGGTTGGAGAATGTTCTGATAGTTCAAGATGCCAATACTAAATTTAATTTTGGAGATAAGGGTTATTTGGCATTTGAACATATAACATGGgtaagcattgattgttcaatctctaaattattaactctcactttggtaactgttcttctctttgtttcattcattttggactatatcttgtaaccagaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT