Sequence
atgc intronic sequence ATGC exonic sequenceATTCGGTACCTCTCACGTTCAAACAGAACAACTCTTTGATGATGCTGGAATTGACAGTTATTTTGAAATGAAGGATGTGCCAGCAGATGAATCTAATGAGgtccgtacctttctgcatatagtctttttatctgctgtgtttgttgtaggaaaagagctctgttttgctatttctgaccttcccgccataatcagggtta...
Basic information
species | Oryza sativa |
transcript | LOC_Os02g49230.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g49230.5 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G042198_T01 (Zea mays), 5'ss of exon 3
ATTCGGTACCTCTCACGTTCAAACAGAACAACTCTTTGATGATGCTGGAATTGACAGTTATTTTGAAATGAAGGATGTGCCAGCAGATGAATCTAATGAGgtccgtacctttctgcatatagtcttttta--tctgctgtgtt--tgttgtaggaaaagagctctgttttgctatttctgaccttcccgccataatcagggtta
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ATTCGGTACCTCTCACATTCGAATAGAGGAACTCTTTGATGACGCCGGAATTGACAGTTACTTTGAAATGAAGGAAACACCGCCTTTTGATTTCAATGAGgtatgtactattcttc-tatactctttgtgattctaaattagtgacattttaggatatcaacatagtctagaaggtgtcaattcggctagggatttctatg---
upper sequence: LOC_Os02g49230.5 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G075562_T01 (Zea mays), 5'ss of exon 3
ATTCGGTACCTCTCACGTTCAAACAGAACAACTCTTTGATGATGCTGGAATTGACAGTTATTTTGAAATGAAGGATGTGCCAGCAGATGAATCTAATGAGgtccgtacctttctgcatatagtctttttatctgctgtgtttgttgt--aggaaaagagctctgttttgctatttctgaccttcccgccat-aatcagggtta-
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ATTTGGTACCTCTCACATTCGAACAGAGGAACTCTTTGATGACGCTGGAATTGACGGTTACTTCGAATTGAAAGAGACACCACCTTTTTATTTCAACGAGgtatgtacttctct-tgtatgactctgtaattctaaatatatgacatttaggacatgaacatagtctagaaagt---gacaattcggcaaggaatttctatgaaMapped 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|88588432|gb|CI706249.1|CI706249EST: TTGACAGTTATTTTGAAATGAAGGATGTGCCAGCAGATGAATCTAATGAG C--CC-AAACCTGTGCAGCCAGAATGTAGCAATGTCGCATCTGTTGATTCT
genomic: TTGACAGTTATTTTGAAATGAAGGATGTGCCAGCAGATGAATCTAATGAGgtccgtacct ... atactttcagCAGCCCAAACCTGTGCAGCCAGAATGTAGCAATGTCGCATCTGTTGATTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTCGGTACCTCTCACGTTCAAACAGAACAACTCTTTGATGATGCTGGAATTGACAGTTATTTTGAAATGAAGGATGTGCCAGCAGATGAATCTAATGAGgtccgtacctttctgcatatagtctttttatctgctgtgtttgttgtaggaaaagagctctgttttgctatttctgaccttcccgccataatcagggtta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG