Sequence
atgc intronic sequence ATGC exonic sequenceAGTAGATGCTGATAAGTCACAAGCTTCTGATAAAACTCAAAAGCCGCGTGCGCTTTTGGGTAGAACTGGTGTAAATGGAGTAGTCACAGATCATCTCCAGgtttttgtcattaccattttttttacccttgcaatgtctataattgttaggcacttacacctggcatttcttcttttgattttgtcatccactatcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g69130.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G129155_T01 (Zea mays), 5'ss of exon 14
AGTAGATGCTGATAAGTCACAAGCTTCTGATAAAACTCAAAAGCCGCGTGCGCTTTTGGGTAGAACTGGTGTAAATGGAGTAGTCACAGATCATCTCCAGgtttttgtcattaccattttttt-tacccttgcaatgtctat-------aattgttaggcacttacacctggcatttcttcttttgattttgtcatccactatcag----
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----GACGGAGTGGATGCACAGGCTTCTGAGAAAACTCAAAAATCACGCGCGATCTTGGGTAGAAGTGGTGTAAATGGAGTAGTTACTGACCACATCCAGgtttttctcatcaccttcttttagtgtgattggaa-gtccatttggtggaatttttgggcactctggctttacccttcctctgttttttttgtcgtacattgtttaccag
upper sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G180335_T01 (Zea mays), 5'ss of exon 14
AGTAGATGCTGATAAGTCACAAGCTTCTGATAAAACTCAAAAGCCGCGTGCGCTTTTGGGTAGAACTGGTGTAAATGGAGTAGTCACAGATCATCTCCAGgtttttgtcattaccatttttt-----ttacccttgcaatgtctataattgttaggcacttacacc-tggcatt--tcttcttttgattttgtcatccactatcag----
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----GATGGAGTGGATTCACAGGTTTCTGAGAAAACTCAAAAATCACGCCCGATATTGGGTAGAAGTGGTGTAAATGGAGTAGTTACTGACCACATCCAGgttttc-tcatcaccatcttttagtaattggatgtccatttggtggattttttgtgcactcgtatcatgactttacccttcctctgtttttgtcgtacattgtttaccagMapped 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|87005415|gb|CI285637.1|CI285637EST: CGCTTTTGGGTAGAACTGGTGTAAATGGAGTAGTCACAGATCATCTCCAG GNTTTACGGCCTGCTGCTGAGGCTGAGAGGCCAGGATCTTCAG
genomic: CGCTTTTGGGTAGAACTGGTGTAAATGGAGTAGTCACAGATCATCTCCAGgtttttgtca ... ccactatcagGGTTTACGGCCTGCTGCTGAGGCTGAGAGGCCAGGATCTTCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTAGATGCTGATAAGTCACAAGCTTCTGATAAAACTCAAAAGCCGCGTGCGCTTTTGGGTAGAACTGGTGTAAATGGAGTAGTCACAGATCATCTCCAGgtttttgtcattaccattttttttacccttgcaatgtctataattgttaggcacttacacctggcatttcttcttttgattttgtcatccactatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA