Sequence
atgc intronic sequence ATGC exonic sequenceTGTGAGGGTTGAAGTTAAGACAGAGGTGAAGCCCACAGGTAAAGATGGTGCTCAACAAGAGCTTGGTCCATCCAAAACACCGTTGGGTCTTCGATTGGAGgtatggtgaggaacttttgtacaagcatttggatagttattcgtggctgccaatgattacatgggctggttgtaacatatacttattttgttttactagtgactatgcctgttgattgccttatgtacttgtcaatttaatgtaaaccacaaaatttctttgttctttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g07080.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g07080.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G125947_T01 (Zea mays), 5'ss of exon 3
TGTGAGGGTTGAAGTTAAGACAGAGGTGAAGCCCACAGGTAAAGATGGTGCTCAACAAGAGCTTGGTCCATCCAAAACACCGTTGGGTCTTCGATTGGAGgtatggtgaggaacttttgtacaagcatttggatagttattcgtggctgccaatgattacatgggctggttgtaa---catatacttattttgttttactagtgactatgcctgttgattgccttatgtacttgtcaatttaatgtaaaccacaaaatttctttgttctttgcag
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TATAATGGTTGAGGTTAAGACAGAGGCAAAGTCCACAAGTAAAGATGCTGGACAGCAAGAGCTTGGTCCATCCATAACACCATTAGGGCTTCGGTTGGAGgttcaatcaatatacttcttgtttttattatgattgtg--ttatgattttcttgaattctagctgttctctacaaaatcataaccttgttttggtgtag----------------------------------------------------------------------------
upper sequence: LOC_Os01g07080.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G367714_T01 (Zea mays), 5'ss of exon 5
TGTGAGGGTTGAAGTTAAGACAGAGGTGAAGCCCACAGGTAAAGATGGTGCTCAACAAGAGCTTGGTCCATCCAAAACACCGTTGGGTCTTCGATTGGAGgtatggtgaggaacttttgtacaagcatttggatagttattcgtggctgccaatgattacatgggctggttgtaacatatacttattttgttttactagtgactatgcctgttgattgccttatgtacttgtcaatttaatgtaaaccacaaaatttctttgttctttgcag
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TATAAGGGTTGAGGTTAAGACAGAGGCAAAGTCCACAAGCAAAGATGCTGGACAGCAAGAGCTTGGTCCATCCATAACACCATTAGGGCTTCGGTTGGAGgttcaatcaatatacttcttgtttttattatgattgt-gttc-tgattttcttgaattctagctgttccctacaaaatca--taaccttgttttggtgcag-----------------------------------------------------------------------
upper sequence: LOC_Os01g07080.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G303752_T03 (Zea mays), 5'ss of exon 3
TGTGAGGGTTGAAGTTAAGACAGAGGTGAAGCCCACAGGTAAAGATGGTGCTCAACAAGAGCTTGGTCCATCCAAAACACCGTTGGGTCTTCGATTGGAGgtatggtgaggaacttttgtacaagcatttggatagttattcgtggctgccaatgattacatgggctggttgtaacatatacttattttgttttactagtgactatgcctgttgattgccttatgtacttgtcaatttaatgtaaaccacaaaatttctttgttctttgcag
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TATAAGGGTTGAGGTTAAGACAGAGGCAAAGTCCACAAGCAAAGATGCTGGACAGCAAGAGCTTGGTCCATCCATAACACCATTAGGGCTTCGGTTGGAGgttcaatcaatatacttcttgttt-tattatgattgtgatc--tgattttcttgaattctagctgttccctacaaaatca--taaccttgttttggtgcag-----------------------------------------------------------------------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|29639070|gb|CB644079.1|CB644079EST: CTCAACAAGAGCTTGGTCCATCCAAAACACCGTTGGGTCTTCGATTGGAG TATATGATATGTGAAGCATCANATAAGTCATCGCA
genomic: CTCAACAAGAGCTTGGTCCATCCAAAACACCGTTGGGTCTTCGATTGGAGgtatggtgag ... ttctttgcagTATATGATATGTGAAGCATCAAATAAGTCATCGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGAGGGTTGAAGTTAAGACAGAGGTGAAGCCCACAGGTAAAGATGGTGCTCAACAAGAGCTTGGTCCATCCAAAACACCGTTGGGTCTTCGATTGGAGgtatggtgaggaacttttgtacaagcatttggatagttattcgtggctgccaatgattacatgggctggttgtaacatatacttattttgttttactagtgactatgcctgttgattgccttatgtacttgtcaatttaatgtaaaccacaaaatttctttgttctttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG