Sequence
atgc intronic sequence ATGC exonic sequenceTGATGCAAGCTCACCCTTGCCATATCAAGTATATGGCAATGGAAAGACTGGATCAGAGCTGTCAACCCGCGGAACATATGACCAGCTACTGGAAAGACAGgttctcccttaagatgcactttattgctcctattgttgtttatcacaacctttgcaggaaaacaatatccttgctatcgttactattggatttgtgcttc...
Basic information
species | Oryza sativa |
transcript | LOC_Os09g21780.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os09g21780.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G055917_T02 (Zea mays), 5'ss of exon 3
TGATGCAAGCTCACCCTTGCCATATCAAGTATATGGCAATGGAAAGACTGGATCAGAGCTGTCAACCCGCGGAACATATGACCAGCTACTGGAAAGACAGgttctcccttaagatgcactttattgctcctattgttgtttatcacaacctttgcaggaaaac-aatatccttgctatcgttactattgga-tttgtgcttc-
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TGATGCAAGCTCACCCTTACCGTATCAGGTGTATGGCAATGGGAAGATTGGATCTCAGTTGCCAACTCGAGGAACATATGATCAGCTATTAGAAAGACAGgtagttgcatatgaagtgttctttttgttct---ggtgcgtatgaggtgttatgatgtcgtactagcacaagggttatttttctttttaaagttcacacttct
upper sequence: LOC_Os09g21780.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G055917_T01 (Zea mays), 5'ss of exon 3
TGATGCAAGCTCACCCTTGCCATATCAAGTATATGGCAATGGAAAGACTGGATCAGAGCTGTCAACCCGCGGAACATATGACCAGCTACTGGAAAGACAGgttctcccttaagatgcactttattgctcctattgttgtttatcacaacctttgcaggaaaac-aatatccttgctatcgttactattgga-tttgtgcttc-
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----------------------------GTGTATGGCAATGGGAAGATTGGATCTCAGTTGCCAACTCGAGGAACATATGATCAGCTATTAGAAAGACAGgtagttgcatatgaagtgttctttttgttct---ggtgcgtatgaggtgttatgatgtcgtactagcacaagggttatttttctttttaaagttcacacttct
upper sequence: LOC_Os09g21780.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G116196_T01 (Zea mays), 5'ss of exon 3
TGATGCAAGCTCACCCTTGCCATATCAAGTATATGGCAATGGAAAGACTGGATCAGAGCTGTCAACCCGCGGAACATATGACCAGCTACTGGAAAGACAGgttctcccttaagatgcactttattgctcctattgttgtttatcacaacctttgcaggaaaac-aatatccttgctatcgtta-ctattggatttgtgcttc-
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TGATGCAAGCTCACCCTTACCATATCAGGTGTATGGAAATGGGAAGACTGGATCACAATTGTCAACTCGAGGAACATATGATCAGCTACTAGAAAGACAGgtagttgcttaggaagtgttctttttgttct---gatgcttatgaggtgttttgatgtcgtattagcagaagggctattgttctcttctgagtacacacttctMapped 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|58665932|gb|CK054618.1|CK054618EST: GATCAGAGCTGTCAACCCGCGGAACATATGACCAGCTACTGGAAAGACAG AAAGAACATGTTCAGCAATTCTTGGCCACAGAAGATGCTTTAAATAAAGCT
genomic: GATCAGAGCTGTCAACCCGCGGAACATATGACCAGCTACTGGAAAGACAGgttctccctt ... taccttgcagAAAGAACATGTTCAGCAATTCTTGGCCACAGAAGATGCTTTAAATAAAGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATGCAAGCTCACCCTTGCCATATCAAGTATATGGCAATGGAAAGACTGGATCAGAGCTGTCAACCCGCGGAACATATGACCAGCTACTGGAAAGACAGgttctcccttaagatgcactttattgctcctattgttgtttatcacaacctttgcaggaaaacaatatccttgctatcgttactattggatttgtgcttc
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