Sequence
atgc intronic sequence ATGC exonic sequenceTCTTCATGGTCTAGTTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGATACTGGAGGACAGgtaaaacatgattgatcttttcttttcttttgagcagatatttcttatcatctccagccctagttcaaaaaaaaaaaattcttatcacccagccctgcatggttgcgtattactgtttttcatgtcttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g69030.4 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g69030.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G875238_T01 (Zea mays), 5'ss of exon 3
TCTTCATGGTCTAGTTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGATACTGGAGGACAGgtaaaacatgattgatcttttcttttcttttgagcagatatttcttatcatctccagccctagttcaaaaaaaaaaaattcttatcacccagccctgcatggttgcgtattactgtttttcatgtcttgcag
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CGTGCATGGTCTTGTTCGTGGAGAAAACATGGAACTAGGTCGTGATTCTGATACAGGTGGCCAGgtaaa-catcattggtcagttactt-------gggagaagttccttatg---------ccgagtc----------aagttttt--------------catggttgagcgcgattgatctttgaatctcacag
upper sequence: LOC_Os01g69030.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G140107_T01 (Zea mays), 5'ss of exon 4
TCTTCATGGTCTAGTTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGATACTGGAGGACAGgtaaaacatgattgatcttttcttttcttttgagcagatatttcttatcatctccagccctagttcaaaaaaaaaaaattcttatcacccagccctgcatggttgcgtattactgtttttcatgtcttgcag
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TGTTCATGGTCTTGTTCGTGGCGAAAACATGGAACTAGGTCGTGATTCTGACACCGGTGGCCAGgtaga-catcattgatcatttccat-------gggagaagttccttatg---ccgaatcaagtttccatggttgagtgtgactgatatttgaatct-cacag------------------------------
upper sequence: LOC_Os01g69030.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ26363 (Selaginella moellendorffii), 5'ss of exon 4
TCTTCATGGTCTAGTTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGATACTGGAGGACAGgtaaaacatgattgatcttttcttttcttttgagcagatatttcttatcatctccagccctagttcaaaaaaaaaaaattcttatcacccagccctgcatggttgcgtattactgtttttcatgtcttgcag
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TCTTCATGGTCTTGTTCGTGGAGAAAACATGGAGCTCGGTCGTGATTCGGACACCGGAGGCCAGgtgaaacaaaa--aactttctttcgcagtcttgactttcgaatcgtatag----------------------------------------------------------------------------------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|58656947|gb|CK045627.1|CK045627EST: TTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGATACTGGAGGACAG GTGAAATATGTTGTTGAACTCGCAAGAGCACTTGCAATGATGCCTGGCGTG
genomic: TTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGATACTGGAGGACAGgtaaaacatg ... tgtcttgcagGTGAAATATGTTGTTGAACTCGCAAGAGCACTTGCAATGATGCCTGGCGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTTCATGGTCTAGTTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGATACTGGAGGACAGgtaaaacatgattgatcttttcttttcttttgagcagatatttcttatcatctccagccctagttcaaaaaaaaaaaattcttatcacccagccctgcatggttgcgtattactgtttttcatgtcttgcag
- - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA