Sequence
atgc intronic sequence ATGC exonic sequenceGAGTGCTTGATGACAAGGATGCAGGAGATGTCCTTGGATTACCACTTCACAGTGGAGCAGGAAGTGAGCTCCTCTGTCTGCGCATTCTTCGGCTTCAATGgtaagcttcaaccttcagtaatttcatctgttcttcaccaagaactttgtctctgaagattctaggatatagaatatgcattctatgttatgatttttatacataagggctgattgattcggtgaattttcaatcag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g09930.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g09930.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G105631_T01 (Zea mays), 5'ss of exon 4
GAGTGCTTGATGACAAGGATGCAGGAGATGTCCTTGGATTACCACTTCACAGTGGAGCAGGAAGTGAGCTCCTCTGTCTGCGCATTCTTCGGCTTCAATGgtaagcttcaaccttcagtaatttcatctgttcttcaccaa-gaactttgtctctgaagattctaggatatagaatatgcattctatgttatgatttttatacataagggctgattgattcggtgaattttcaatcag
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GAGTGCCTGATGACGAGGATGCAGGAGATGTCCCTGGACTACCACTTCACCGTGGAGCAGGAAGTGAGCTCCTCCGTCTGCGCCTTCTTTGGATTCAACGgtaaacca-agctcgcacccagcgc-tctatccatcgcttctgcatttcatccatagca---ccaggtagctgagtagt--ttcggcaaccag---------------------------------------------
upper sequence: LOC_Os02g09930.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv06s0061g01230.t01 (Vitis vinifera), 5'ss of exon 4
GAGTGCTTGATGACAAGGATGCAGGAGATGTCCTTGGATTACCACTTCACAGTGGAGCAGGAAGTGAGCTCCTCTGTCTGCGCATTCTTCGGCTTCAATGgtaag--cttcaaccttcagtaatttcatctgttcttcaccaagaactttgtctctgaagattctaggatatagaatatgcattctatgttatgatttttatacataagggctgattgattcggtgaattttcaatcag
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GAGTGCTTAATGACAAGGATGCAAGAGATGTCATTGGATTATCATTTTACAGTGGAGCAAGAAGTTGGATCAGCTACTCATGCCTTCTTCGGTTTCAATGgtaaatacgttggtatttattgaacaaatgacaaatacatcccatgattctttgagagaagctaagaaatgaaaaatattaatggcatgcag-----------------------------------------------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|58596607|gb|CK007135.1|CK007135EST: AGTGGAGCAGGAAGTGAGCTCCTCTGTCTGCGCATTCTTCGGCTTCAATG GAACTGCTGGTGTGTGGCGCGTTTCCGCGGTAAACGAGGCGGGAGGATGGA
genomic: AGTGGAGCAGGAAGTGAGCTCCTCTGTCTGCGCATTCTTCGGCTTCAATGgtaagcttca ... tttcaatcagGAACTGCTGGTGTGTGGCGCGTTTCCGCGGTAAACGAGGCGGGAGGATGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGTGCTTGATGACAAGGATGCAGGAGATGTCCTTGGATTACCACTTCACAGTGGAGCAGGAAGTGAGCTCCTCTGTCTGCGCATTCTTCGGCTTCAATGgtaagcttcaaccttcagtaatttcatctgttcttcaccaagaactttgtctctgaagattctaggatatagaatatgcattctatgttatgatttttatacataagggctgattgattcggtgaattttcaatcag
- - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC