Sequence
atgc intronic sequence ATGC exonic sequenceCTGCTCGGGCCCGTACCCGTGAGGCTACCGGCCGCGGCGGGCGGCGATGGGTGGAGGGACGTATGCGGAGGCGGCTGCGGCTTCGCCATGGCCATCTCAGgtgacgtcccgtgactctccttctcattgctgttccgctcgtgctccgttgctctcgattcgttgggtttttcggggtgggctgtggtagatctactgga...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g62810.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g62810.4 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G337819_T02 (Zea mays), 5'ss of exon 1
CTGCTCGGGCCCGTACCCGTGAGGCTACCGGCCGCG---GCGGGCGGCGATGGGTGGAGGGACGTATGCGGAGGCGGCTGCGGCTTCGCCATGGCCATCTCAGgtgacgtcccgtgactctccttctcattgctgttccgctcgtgctccgttgctctcgattcgttgggtttttcggggtgggctgtggtagatctactgga---
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---CCGGTCCCCGTAAGGTTGCCCCCGACGGCGGCGACTGCCGCCGGTGATGGGTGGAGAGACGTGTGCGGCGGCGGTTGCGGCTTCGCGATGGCCATCTCTGgtgacgtatcctg-ttctcttcctcattgttgccgtgcttattctctgatgctgccagttcattgg--ttcttcgcgtgggatgtggtagatctgttgggggt
upper sequence: LOC_Os01g62810.4 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA07G16400.1 (Glycine max), 5'ss of exon 1
CTGCTCGGGCCCGTACCCGTGAGGCTA-CCGGCCG--CGGCGGGCGGCGATGGGTGGAGGGACGTATGCGGAGGCGGCTGCGGCTTCGCCATGGCCATCTCAGgtgacgtcccgtgactctccttctcattgctgttccgctcgtgctccgttgctc-tcgattcgttgggtttttcggggtgggctgtggtagatctactgga
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---CTGTCTCCGGCGCCGGTGAATCTCTCCGATCGTTCACTCGCCGGAGATTCGTGGAAGGACGTGTGCGGCGGTGGTTGCGGATTCGCCATGGCCATCTCAGgttgattcctcaggccgttgactctattttgactaaattcatacaaaaaacttaatccacttcaaagatgttctagatctgaaaccgttagaaccagatc-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|29664300|gb|CB660575.1|CB660575EST: GTGGAGGGACGTATGCGGAGGCGGCTGCGGCTTCGCCATGGCCATCTCAG AGTCTGGTAAACTCCTCACTTGGGGTTCTGCTGATGATATGGGCCAAAGCT
genomic: GTGGAGGGACGTATGCGGAGGCGGCTGCGGCTTCGCCATGGCCATCTCAGgtgacgtccc ... tttggatcagAGTCTGGTAAACTCCTCACTTGGGGTTCTGCTGATGATATGGGCCAAAGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGCTCGGGCCCGTACCCGTGAGGCTACCGGCCGCGGCGGGCGGCGATGGGTGGAGGGACGTATGCGGAGGCGGCTGCGGCTTCGCCATGGCCATCTCAGgtgacgtcccgtgactctccttctcattgctgttccgctcgtgctccgttgctctcgattcgttgggtttttcggggtgggctgtggtagatctactgga
- - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG