Sequence
atgc intronic sequence ATGC exonic sequenceGCAGTTGATATTGCAGCTGATAACTTAGAGGCAGGCACTTCCTCATATCACTGCAGgtatgttcacaattgcaaatttgcaattaggatctggtaaatggtacatgcatttgtttttcctttgaaattttaaatagtaaaacccttattcatctctaaccgcacattgacag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g27350.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g27350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G173682_T01 (Zea mays), 5'ss of exon 6
GCAGTTGATATTGCAGCTGATAACTTAGAGGCAGGCACTTCCTCATATCACTGCAGgtatgttcacaattgcaaatttgcaattaggatctggtaaatggtacatgcatttgtttttcctttgaaattttaaatagtaaaacccttattcatctctaaccgcacattgacag
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GCGGTTGATATTGCACCGGATAACTTGGAGGCGGACACTTCCTCGTACCACTGCAGgtatgtgtgctgttgtggaat-------gaaatctgatgaatggaac-tgcat--attcactctatgcatgcccaaatgatggg-ctctgattcatgtgtgcctgcacttgtag--
upper sequence: LOC_Os03g27350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G064212_T02 (Zea mays), 5'ss of exon 7
GCAGTTGATATTGCAGCTGATAACTTAGAGGCAGGCACTTCCTCATATCACTGCAGgtatgttcacaattgcaaatttgcaattaggatctggtaaatggtacatgcatttgtttttcctttgaaattttaaatagtaaaacccttattcatctctaaccgcacattgacag
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ACGGTTGACATTGCACTGGATAACTTGGAGGCAGACACTTCCTCATACCACTGCAGgtatgtgtgtcgttgtggaat-------gaaatctgatgaatggaac-tgcagattcgttgtcaatgcatgctcaaatgatggg-ctctgattcatgtgt--ctggacttgtacagMapped 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|29646596|gb|CB651603.1|CB651603EST: GATATTGCAGCTGATAACTTAGAGGCAGGCACTTCCTCATATCACTGCAG CACTGTACGAGATTTGGCCCTAGACCTGATAGACCCGTCATTGGCTATCGG
genomic: GATATTGCAGCTGATAACTTAGAGGCAGGCACTTCCTCATATCACTGCAGgtatgttcac ... acattgacagCACTGTACGAGATTTGGCCCTAGACCTGATAGACCCGTCATTGGCTATCGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAGTTGATATTGCAGCTGATAACTTAGAGGCAGGCACTTCCTCATATCACTGCAGgtatgttcacaattgcaaatttgcaattaggatctggtaaatggtacatgcatttgtttttcctttgaaattttaaatagtaaaacccttattcatctctaaccgcacattgacag
- - - - - - GCAGCT
- - - - - - CAGCTG
- - - - - - - AGCTGA
- - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG