Sequence
atgc intronic sequence ATGC exonic sequenceATTGTAAATCAGGAGCACAAGAAGCTTCCTGAAGACTTAGATTATCATTCAATGACAAACCTGTCACTTGAAGCTCGTGAGAAACTTTCAAAGgtgtgtgatcttcttcatgttaagaaccttatatagcagatgacctgtcaacatatataaatgaaatgcattatacggttctctatttgttgacacatgt...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g72980.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g72980.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G481548_T01 (Zea mays), 5'ss of exon 12
ATTGTAAATCAGGAGCACAAGAAGCTTCCTGAAGACTTAGATTATCATTCAATGACAAACCTGTCACTTGAAGCTCGTGAGAAACTTTCAAAGgtgtgt---------gatcttcttcatgttaagaacctta-tatagcagatgacct----gtcaacatatataaatgaaatgc--attatacggttctctatttgttgacacatgt--------------------
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ATCGTAAACCAAGAACACAGGAAACTTCCTGAAGATTTGGATTACCACTCAATGACAAATCTATCACTTGAAGCTCGTGAGAAACTTTCCAAGgtaagttcggggacaaggctacatctttttctgaaacttggtgtcatgtgcgagcacaaggtcaata-atgtagattaggagccaattctgtaggtattgttttatctaagattgtactgtgtgattcatttgcag
upper sequence: LOC_Os01g72980.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA05G32720.1 (Glycine max), 5'ss of exon 9
ATTGTAAATCAGGAGCACAAGAAGCTTCCTGAAGACTTAGATTATCATTCAATGACAAACCTGTCACTTGAAGCTCGTGAGAAACTTTCAAAGgtgtgtgatcttcttcatgttaagaaccttatatagcagatgacctgtcaacatatataaatgaaatgcatta---tacggttctctatttgttgacacatgt
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GTGGTTGCTCAACAACATAGACCACTTCCTGAAGACTTAGATTACTATGCAATGACAACATTGTCTCTTGAAGCTCGCGAAAAACTTTCCAAGgtttgtaagttataagtttattaaatagatatttggttaacatccgtaaaataagaatttataaattttaatggttcaaaatacttcaaatattataata---
upper sequence: LOC_Os01g72980.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA08G00380.1 (Glycine max), 5'ss of exon 11
---ATTGTAAATCAGGAGCACAAGAAGCTTCCTGAAGACTTAGATTATCATTCAATGACAAACCTGTCACTTGAAGCTCGTGAGAAACTTTCAAAGgtgtgtgatcttcttcatgttaagaaccttatatagcagatgacctgt-caacatatataaatgaaatgcattatacggttctc-tatttgttgacacatgt---------
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CTGGTTGCAAAACAA---CATAGACCACTTCCTGAAGACTTGGATTACTATGCAATGACAACATTGTCTCTTGAAGCTCGCGAAAAACTTTCCAAGgtttgt----------acgttataaat-ttataaaatagatatttggttcattacatccgtcacaagttcaatgtacaaatttagtaataatgggcaaaaaataatgagatMapped 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|86597691|gb|CI274682.1|CI274682EST: ATCATTCAATGACAAACCTGTCACTTGAAGCTCGTGAGAAACTTTCAAAG GTAAGGCCACAAACAATAGGCCAGGCTAGCAGAATTGGCGGGGTGAGCCCA
genomic: ATCATTCAATGACAAACCTGTCACTTGAAGCTCGTGAGAAACTTTCAAAGgtgtgtgatc ... gtatgtttagGTAAGGCCACAAACAATAGGCCAGGCTAGCAGAATTGGCGGGGTGAGCCCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGTAAATCAGGAGCACAAGAAGCTTCCTGAAGACTTAGATTATCATTCAATGACAAACCTGTCACTTGAAGCTCGTGAGAAACTTTCAAAGgtgtgtgatcttcttcatgttaagaaccttatatagcagatgacctgtcaacatatataaatgaaatgcattatacggttctctatttgttgacacatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC