Sequence
atgc intronic sequence ATGC exonic sequenceCGGGAAGAAGAAGCACGCCAAGAACAGCGACAGCGGCGCGCAGGCGTCGGACAAGAGGTTCAAGACGCTGCCGGCGTCGGAGGCGCTCCCCCGGGACGAGgccatcggcggctacatcttcgtctgcaacaacgacaccatggaggaaaacctcaagaggcagctcttcggtaagcataaccaacctataaattcgatga...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g36950.4 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g36950.4 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G071154_T01 (Zea mays), 5'ss of exon 1
CGGGAAGAAGAAGCACGCCAAGAACAGCGACAGCGGCGCGCAGGCGTCGGACAAGAGGTTCAAGACGCTGCCGGCGTCGGAGGCGCTCCCCCGGGACGAGgccatcggcggctacatcttcgtctgcaacaacgacaccatggaggaaaacctcaagaggcagctcttcggtaagcataaccaacctataaa-ttcgatga--------------------------------------------------------------------------------
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----------------------------------------------------------------------CCGGCGTCGGAGGCGCTGCCGCGGGGCCAGGCCATCGGCGGGTACATCTTCGTCTGCAACAACGACACTATGGACGAGAACCTCAGGAGGGAGCTGTTCGgtgagcgatattatattattatcttcggcgggtacgatgatgaacaccaccagcagcagcagcatactgattgtttgatgggtggaatggattggaattcaattgatgcag
upper sequence: LOC_Os01g36950.4 (Oryza sativa), 5'ss of exon 1
lower sequence: AC207342.3_FGT008 (Zea mays), 5'ss of exon 1
CGGGAAGAAGAAGCACGCCAAGAACAGCGACAGCGGCGCGCAGGCGTCGGACAAGAGGTTCAAGACGCTGCCGGCGTCGGAGGCGCTCCCCCGGGACGAGgccatcggcggctacatcttcgtctgcaacaacgacaccatggaggaaaacctcaagaggcagctcttcggtaagca--taacca-acctataaattcgatga----------------------------------------------------------------------------------------------------------------------------------
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----------------------------------------------------------------------CCGGCGTCGGAGGCGCTGCCGCGGGGCGAGGCCATCGGCGGCTACATCTTCGTCTGCAACAACGACACCATGGACGAGAACCTCAGGAGGGAGCTGTTCGgtgagccactgaccgcgcgcgcaggcacaagaaccgtatcgtttcgtttctgtctgaaatagctagggcagctgaaaagaagcgatatttgttgattgattgatgatgaacaccggaataaaccagcagagctgattgattgtgtttgatggggtggatgcag
upper sequence: LOC_Os01g36950.4 (Oryza sativa), 5'ss of exon 1
lower sequence: AT5G42050.1 (Arabidopsis thaliana), 5'ss of exon 1
CGGGAAGAAGAAGCACGCCAAGAACAGCGACAGCGGCGCGCAGGCGTCGGACAAGAGGTTCAAGACGCTGCCGGCGTCGGAGGCGCTCCCCCGGGACGAGgccatcggcggctacatcttcgtctgcaacaacgacaccatggaggaaaacctcaagaggcagctcttcggtaagcataacca-acctataaattcgatga-------------------------------------------------
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----------------------------------------------------------------------CCTCCAGCAGAAGCTTTGCCAAGAAACGAAACCATTGGTGGTTACATCTTTGTCTGCAACAACGATACCATGGAAGAGAATCTCAAACGCCAGCTTTTCGgtattcatcaccacatctttcttcttactgtttcgattgtttcttcttggttttgatttgtggggatggaaattgtttag
upper sequence: LOC_Os01g36950.4 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv02s0025g01720.t01 (Vitis vinifera), 5'ss of exon 1
CGGGAAGAAGAAGCACGCCAAGAACAGCGACAGCGGCGCGCAGGCGTCGGACAAGAGGTTCAAGACGCTGCCGGCGTCGGAGGCGCTCCCCCGGGACGAGgccatcggcggctacatcttcgtctgcaacaacgacaccatggaggaaaacctcaagaggcagctcttcggtaagc----ataaccaacctataaattcgatga------------------------------------------------------------------
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----------------------------------------------------------------------CCACCATCGGAGTCTCTCCCCAGAAATGAGACCGTTGGTGGATACATCTTTGTCTGCAACAACGATACTATGCAAGAGAATCTCAAGAGACAGCTCTTTGgtaagcccccgtctctgtttctctgattctatttaccatttttcagtgtccttctttggggtttgattctgattctgttttgcgttggtgggtatctctcMapped 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|88201072|gb|CI201427.1|CI201427EST: ACAAGAGGTTCAAGACGCTGCCGGCGTCGGAGGCGCTCCCCCGGGACGAG GCTACTGCTTCCCTGCTGCTGCTTGCTGAAGAATATCAGGGGACTGCCGGT
genomic: ACAAGAGGTTCAAGACGCTGCCGGCGTCGGAGGCGCTCCCCCGGGACGAGgccatcggcg ... gacgcctgagGCTACTGCTTCCCTGCTGCTGCTTGCTGAAGAATATCAGGGGACTGCCGGT
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 |
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CGGGAAGAAGAAGCACGCCAAGAACAGCGACAGCGGCGCGCAGGCGTCGGACAAGAGGTTCAAGACGCTGCCGGCGTCGGAGGCGCTCCCCCGGGACGAGgccatcggcggctacatcttcgtctgcaacaacgacaccatggaggaaaacctcaagaggcagctcttcggtaagcataaccaacctataaattcgatga
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcggct