Sequence
atgc intronic sequence ATGC exonic sequenceGCCACAGAACCGTCAAAGTATGTTGTTCTCTGCAACAATGCCCAGTTGGATTAGAAAAATCACAAGCAAGTACTTGAAAGATCCAATCATTATTGACCTAgtgagtgcctttctcttattttcacctgtgaattcttatcttgtttgtcctggtgtggtgtatcttcttttttttttcttttttttttgcgggaagttca...
Basic information
species | Oryza sativa |
transcript | LOC_Os07g05050.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g05050.3 (Oryza sativa), 5'ss of exon 3
lower sequence: AT3G22310.1 (Arabidopsis thaliana), 5'ss of exon 3
GCCACAGAACCGTCAAAGTATGTTGTTCTCTGCAACAATGCCCAGTTGGATTAGAAAAATCACAAGCAAGTACTTGAAAGATCCAATCATTATTGACCTAgtgagtgccttt-------ctcttattttcacctgtgaattcttatct----------tgtttgtcctgg-tgtggt-gtatcttcttttttttttcttttttttttgcgggaagttca--------------
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GCCAGCGAAGCGTCAGAGTATGATGTTTTCTGCAACAATGCCAAGTTGGATCAGATCTCTCACCAAGAAGTACCTGAACAATCCTTTGACAATTGATCTTgtgagtagtcttatacctgcttgtgtttatatcttagaattgctgtacaaattgcaaatattgatcttggctgtagcagtgtagttaatgaagtgacattttttaatgacacatgtactcttatgtaatttag
upper sequence: LOC_Os07g05050.3 (Oryza sativa), 5'ss of exon 3
lower sequence: AT3G22330.1 (Arabidopsis thaliana), 5'ss of exon 3
GCCACAGAACCGTCAAAGTATGTTGTTCTCTGCAACAATGCCCAGTTGGATTAGAAAAATCACAAGCAAGTACTTGAAAGATCCAATCATTATTGACCTAgtgagt-gcctttctcttattttcacctgtga-attcttatcttgtttgtcctggtgtggtgtatcttcttttttttttcttttttttttgcgggaagttca---------------------------------------
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GCCTGAGAAACGTCAGAGTATGATGTTTTCTGCAACAATGCCGAGTTGGATCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGTTGATCTTgtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagtta-gcagagttgttaatgaagtgatttcttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcag
upper sequence: LOC_Os07g05050.3 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv12s0142g00670.t01 (Vitis vinifera), 5'ss of exon 3
GCCACAGAACCGTCAAAGTATGTTGTTCTCTGCAACAATGCCCAGTTGGATTAGAAAAATCACAAGCAAGTACTTGAAAGATCCAATCATTATTGACCTAgtgagt-----------gcctttc----tcttattttc-acctgtg--aattcttatcttgttt---gtcctggtgtggtgtatcttcttttttttttctt--ttttttttgcgggaagttca-----------------------
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GCCACAAAATCGTCAGAGCATGATGTTCTCTGCAACAATGCCAAGTTGGATTAGGAAGCTTACCCAGAAGTACCTAAAAAATCCATTAACTATTGATCTTgtgagtttggagagtttgtttttccatttcttattcgctggttgtagtaactattatccttttccaagctatattatgaaaaggcatgttcttaactatttgattcttatgactgcaaacttattaatattggatgttcactgtagMapped 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|29680607|gb|CB676882.1|CB676882EST: TTAGAAAAATCACAAGCAAGTACTTGAAAGATCCAATCATTATTGACCTA GTTGGTGATGAGGACCAGAAATTACCTGAAGGAATCTCTCTTTATTCAATT
genomic: TTAGAAAAATCACAAGCAAGTACTTGAAAGATCCAATCATTATTGACCTAgtgagtgcct ... gtttcctaagGTTGGTGATGAGGACCAGAAATTACCTGAAGGAATCTCTCTTTATTCAATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCACAGAACCGTCAAAGTATGTTGTTCTCTGCAACAATGCCCAGTTGGATTAGAAAAATCACAAGCAAGTACTTGAAAGATCCAATCATTATTGACCTAgtgagtgcctttctcttattttcacctgtgaattcttatcttgtttgtcctggtgtggtgtatcttcttttttttttcttttttttttgcgggaagttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG