Sequence
atgc intronic sequence ATGC exonic sequenceGGAGCCCGCCCACGCCGTGCGCCGAGCACCTCGCGGTCAACGGATGCGCCGCCGAGCGCCCGCCGGTGCAGTCCCCCTTCGATCCCGCCAAGAGGGAAGGgttagtcctagtcgccccaccggctcaccctctttgattaggtgtagccgagttaaagctcgtttttggcatcttgtgaggatttgttgcgttcgtttctgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g55974.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g55974.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G124091_T05 (Zea mays), 5'ss of exon 1
GGAGCCCGCCCACGCCGTGCGCCGAGCACCTCGCGGTCAACGGATGCGCCGCCGAGCGCCCGCCGGTGCAGTCCCCCTTCGATCCCGCCAAGAGGGAAGGgttagtcctagtcgccccaccggctcaccctctttgattaggtgtagccgagttaaagctcgtttttggcatcttgtgaggatttgttgcgttcgtttctgcag
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CATCCTCCGTCAGACCCCAGAACCTCCCCGCCGCCGCTAACGGATCTGCCTCCGAGCGCCCGCTGGCTCAGTCCCCCTTCGATCCTGTCAAGAGGGAAGGgttcgtcaatgttctcccg--------ccctcgttagcgatccttatgccagtc--cgctcgtcttgagtctcctgtgcagattcgtggcgcttgtttgtgcag
upper sequence: LOC_Os01g55974.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G124091_T04 (Zea mays), 5'ss of exon 1
GGAGCCCGCCCACGCCGTGCGCCGAGCACCTCGCGGTCAACGGATGCGCCGCCGAGCGCCCGCCGGTGCAGTCCCCCTTCGATCCCGCCAAGAGGGAAGGgttagtcctagtcgccccaccggctcaccctctttgattaggtgtagccgagttaaagctcgtttttggcatcttgtgaggatttgttgcgttcgtttctgcag
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CATCCTCCGTCAGACCCCAGAACCTCCCCGCCGCCGCTAACGGATCTGCCTCCGAGCGCCCGCTGGCTCAGTCCCCCTTCGATCCTGTCAAGAGGGAAGGgttcgtcaatgttctcccg--------ccctcgttagcgatccttatgccagtc--cgctcgtcttgagtctcctgtgcag-----------------------Mapped 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|88395592|gb|CI613114.1|CI613114EST: GCCGAGCGCCCGCCGGTGCAGTCCCCCTTCGATCCCGCCAAGAGGGAAGG GTATATCTCCTGGGACGAATACTTCATGGCGATAGCGTTCCTTTCGGCCAA
genomic: GCCGAGCGCCCGCCGGTGCAGTCCCCCTTCGATCCCGCCAAGAGGGAAGGgttagtccta ... gtttctgcagGTATATCTCCTGGGACGACTACTTCATGGCGATCGCGTTCCTTTCGGCCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGCCCGCCCACGCCGTGCGCCGAGCACCTCGCGGTCAACGGATGCGCCGCCGAGCGCCCGCCGGTGCAGTCCCCCTTCGATCCCGCCAAGAGGGAAGGgttagtcctagtcgccccaccggctcaccctctttgattaggtgtagccgagttaaagctcgtttttggcatcttgtgaggatttgttgcgttcgtttctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG