Sequence
atgc intronic sequence ATGC exonic sequenceATCAGCTAATATAGGAGTATTCATATGCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaattgcaatatagatagtgctataaatcttttttcatctttcttatccaattgaattcagcaagtttttctgtatttacagcataggcaaagtttgcactgacaattatggcatattatacatcatgttttgagcataatcaccattcagtatttgttttgagcag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g10480.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g10480.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G138349_T03 (Zea mays), 5'ss of exon 4
ATCAGCTAATATAGGAGTATTCATATGCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaattgcaatatagatagtgctataaatcttttttcatctttcttatccaattgaattcagcaagtttttctgtatttacagcataggcaaagtttgcactgacaattatggcatattatacatcatgttttgagcataatcaccattcagtatttgttttgagcag
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ATCAGCTAATATTGGGGTATTCATTTGCGTAAAATGTTCTGGCGTCCATAGAAGTCTCGGTACACATATTTCAAAGgtttttgtagtcacacactaaaaccagaaattaccttacatgtttctttctt-tctatttttctttcctttttttgtttgtttttagagtttat-tactgtc------------------------------------------------------------------------
upper sequence: LOC_Os02g10480.3 (Oryza sativa), 5'ss of exon 5
lower sequence: AT4G05330.1 (Arabidopsis thaliana), 5'ss of exon 4
ATCAGCTAATATAGGAGTATTCATATGCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgt----ttcttcaattgcaatat-agatagtg-ctataaatcttttttcatctttcttatccaattgaattcagcaagtttttctgtatttacagcataggcaaagtttgcactgacaattatggcatattatacatcatgttttgagcataatcaccattcagtatttgttttgagcag
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ATCAGCAAATATCGGAGTATTCATTTGCTTAAAATGTTGCGGTGTGCACAGGAGCCTCGGCACTCATATTTCAAAGgtgatatatcttctttgctctattacatattggttgtccatttgttgtctcttttcttcattactcaag---acaaaattagatctctttcgttgtgtactcattgtttggtttctccag------------------------------------------------------------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|29645546|gb|CB650553.1|CB650553EST: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAG GTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
genomic: GCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaa ... ttttgagcagGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCAGCTAATATAGGAGTATTCATATGCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACACACATTTCAAAGgtttcttcaattgcaatatagatagtgctataaatcttttttcatctttcttatccaattgaattcagcaagtttttctgtatttacagcataggcaaagtttgcactgacaattatggcatattatacatcatgttttgagcataatcaccattcagtatttgttttgagcag
- - - - - - - - - - - - - - - - - - - - - - - - AGAAGT