Sequence
atgc intronic sequence ATGC exonic sequenceACAGCTTATCACACTTATACAACAAAAGGAAGTCGTGGGAGATCTTTTTAACCAGCTTCGGCTGGCTCTGCAGAGACGAACAAATTCACGCCCAGCACAGgtattaatgtcttaaattggaacaatgaagcttttgttagctttaacatgtctcaattttctctcttgagaaacatgagattctgccctatacattatgt...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g14810.3 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g14810.3 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G044819_T02 (Zea mays), 5'ss of exon 12
ACAGCTTATCACACTTATACAACAAAAGGAAGTCGTGGGAGATCTTTTTAACCAGCTTCGGCTGGCTCTGCAGAGACGAACAAATTCACGCCCAGCACAGgtattaatgtcttaaattggaacaatgaagcttttgttagctttaacatgtctcaattttctctcttgagaaacatgagattctgccctatacattatgt------------
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AAAGCTTGTTACACTTATACAACAAAAAGAAATTGTGGGGGATCTTTTCAACCAGCTTCGCCTGGCTCTGCAGAGGCGCTCTAATTCACGTCCTGCACAGgtactagagt---------gaagcctgatgctttagtgagctccagcatgt-tcaatgtcctt--ttcagatgtttgaaactttaacatttgtattactttcagcaatgcac
upper sequence: LOC_Os01g14810.3 (Oryza sativa), 5'ss of exon 13
lower sequence: GLYMA17G04580.1 (Glycine max), 5'ss of exon 13
ACAGCTTATCACACTTATACAACAAAAGGAAGTCGTGGGAGATCTTTTTAACCAGCTTCGGCTGGCTCTGCAGAGACGAACAAATTCACGCCCAGCACAGgta--ttaatgtcttaaattggaacaatgaagct--tttgttagctttaacatg-tctcaattttctctcttgagaaacatgagattctgccctatacattatgt
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ATCATTGGTGGAGCTTATTAGTCAAAAGGAGGTTGTAGGGGATCTCTTTAATCAACTTCGGCTGGCTCTGCAGAGGCGAAGTAAAGACCGTCCTGCTCAAgtaagtttcagtcatataatcccattgtgtattccatttttatgctttattgcggtaatggcaataccttttaccattgttggaaaattaa---aagcattag--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|38476147|gb|CF960280.1|CF960280EST: ACCAGCTTCGGCTGGCTCTGCAGAGACGAACAAATTCACGCCCAGCACAG ACGCTTGCTGCTACTTGTATGGATGATCAGGAGCTTACAGAAAGTATGCAA
genomic: ACCAGCTTCGGCTGGCTCTGCAGAGACGAACAAATTCACGCCCAGCACAGgtattaatgt ... tcttttccagACGCTTGCTGCTACTTGTATGGATGATCAGGAGCTTACAGAAAGTATGCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACAGCTTATCACACTTATACAACAAAAGGAAGTCGTGGGAGATCTTTTTAACCAGCTTCGGCTGGCTCTGCAGAGACGAACAAATTCACGCCCAGCACAGgtattaatgtcttaaattggaacaatgaagcttttgttagctttaacatgtctcaattttctctcttgagaaacatgagattctgccctatacattatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG