Sequence
atgc intronic sequence ATGC exonic sequenceACACTCCCATGAAGAAGAAGTTCCAGAGGAACTTCTCAGAGCTCACCGTCAGCTGGTCCGACGAGAACAAGGAGAAAAAGCTGTACATTGTGCTCATCAGgtcttataccgcttactttactcattggtgccattctgtatatgccactaaattgcaaaattttactgagttcctttattctttgttctactttag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g69030.3 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g69030.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G140107_T01 (Zea mays), 5'ss of exon 3
---ACACTCCCATGAAGAAGAAGTTCCAGAGGAACTTCTCAGAGCTCACCGTCAGCTGGTCCGACGAGAACAAGGAGAAAAAGCTGTACATTGTGCTCATCAGgtct-----tataccgcttactttactcattggtgccattctgtatatgccactaaattgcaaaattttactgagttcc---tttattctttgttctactttag
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CGGTTGAGGCGGCCAAGAAGAAGTTCCAGAGGAACTTCTCTGACCTTACCGT---CTGGTCTGACGACAATAATGAGAAGAAGCTTTACATTGTGCTCATCAGgtctacccacttgcacatcgtttcgttctatgtcactatgtggcgtaaaatgctaaaatatatatgtataagaaatgacagttttagggggtgttggaat----
upper sequence: LOC_Os01g69030.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G875238_T01 (Zea mays), 5'ss of exon 2
---ACACTCCCATGAAGAAGAAGTTCCAGAGGAACTTCTCAGAGCTCACCGTCAGCTGGTCCGACGAGAACAAGGAGAAAAAGCTGTACATTGTGCTCATCAGgtcttataccgcttactttactcattggtgccattctgta-tatgccactaaattgcaaaattttactgagttcctttattctttgttctactttag-------
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CGGTTGAGACGACCAAGAAGAAGTTCCAGAGGAACTTCTCTGACCTTACCGT---CTGGTCTGACGACAATAAGGAGAAGAAGCTTTACATTGTGCTCATCAGgtcta--cccacttgcac-attgttttgttctatgttgtgctaaattggtaaaccatatatatatatatatatatatcgtaatgaaatgt-ctctagcctttttMapped 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|58656947|gb|CK045627.1|CK045627EST: AGCTGGTCCGACGAGAACAAGGAGAAAAAGCTGTACATTGTGCTCATCAG TCTTCATGGTCTAGTTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGA
genomic: AGCTGGTCCGACGAGAACAAGGAGAAAAAGCTGTACATTGTGCTCATCAGgtcttatacc ... tctactttagTCTTCATGGTCTAGTTCGTGGCGATAACATGGAACTTGGTCGGGATTCAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACACTCCCATGAAGAAGAAGTTCCAGAGGAACTTCTCAGAGCTCACCGTCAGCTGGTCCGACGAGAACAAGGAGAAAAAGCTGTACATTGTGCTCATCAGgtcttataccgcttactttactcattggtgccattctgtatatgccactaaattgcaaaattttactgagttcctttattctttgttctactttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG