Sequence
atgc intronic sequence ATGC exonic sequenceCAGATCCTGCCGCGGCGGTCCCTCCGCGTGCTGCTCGTCGAGCACGACGACTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCGgtgagtacccctcgctctctccctacctaaaccctaatcgctctcctctcctcgcgattgattgctattgagagttttctgaggagggaattgggggggattggttccctgtttgccctgtgtgctcgttttgatcggaggtgagcag
Basic information
species | Oryza sativa |
transcript | LOC_Os11g05930.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g05930.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G135446_T01 (Zea mays), 5'ss of exon 1
CAGATCCTGCCGCGGCGGTCCCTCCGCGTGCTGCTCGTCGAGCACGACGACTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCGgtgagtacccctcgctctctccctacctaaaccctaatcgctctcctctcctcgcgattgattgctattgagagttttctgaggagggaattgggggggattggttcc-ctgtttgccctgtgtgctcgttttgatcggaggtgagcag----
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CAGATCCTGCCGCGCCGCTCCCTGCGGGTGCTTCTCGTCGAGCACGACGACTCCACGCGCCAGATCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCGgtgagt-cgccgcgccctctact--ccttctctcccatggctccccagcgagacctgcttgctgcggctgttaaccccccacgga---aattctcggcgctccgttcttctgactcctctcccccctcgcgacctccgggagacggctggcag
upper sequence: LOC_Os11g05930.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ19270 (Selaginella moellendorffii), 5'ss of exon 1
CAGATCCTGCCGCGGCGGTCCCTCCGCGTGCTGCTCGTCGAGCACGACGACTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCGgtgagtacccctcgctctctccctacctaaaccctaatcgctctc-ctctcctcgcgattgattgctattgagagttttctgaggagggaattgggggggattggttccctgtttgccctgtgtgctcgttttgatcggaggtgagcag
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AATGCTTTCCAGCATCACCACCTTAAAGTTCTTCTCGTGGAGGACGACGACTCCACCCGGCACGTCGTGGCGGCGCTCCTCCGCAACTGTGGCTACGAAGgttactgt--cttggtttctcgg-atcacgattctaattgtcggctctgtgcttgtgcttgaatctcag--------------------------------------------------------------------------------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|33674795|gb|CF303034.1|CF303034EST: CTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCG TGGCGGCGGTGGCGGACGGGATGAAGGCGTGGGGGGTGATGCGGGAGCGGG
genomic: CTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCGgtgagtaccc ... aggtgagcagTGGCGGCGGTGGCGGACGGGATGAAGGCGTGGGGGGTGATGCGGGAGCGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGATCCTGCCGCGGCGGTCCCTCCGCGTGCTGCTCGTCGAGCACGACGACTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCGgtgagtacccctcgctctctccctacctaaaccctaatcgctctcctctcctcgcgattgattgctattgagagttttctgaggagggaattgggggggattggttccctgtttgccctgtgtgctcgttttgatcggaggtgagcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC