Sequence
atgc intronic sequence ATGC exonic sequenceTTATTTCTTGGGAGTACCCATGGTCAGCATGCTTCTTTATGTCTGGAGCAGAGAATATCCGAATTCTCAGATCAGCATGTATGGCCTTGTCCAACTGAGGgtaagcttcactactaccatatatagaactcgatgccctttataggtcatcaatattggtttcaagtcttgtggagcaaattatgtttgattgtggttaatatactccatttctgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g09550.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g09550.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G117388_T01 (Zea mays), 5'ss of exon 5
TTATTTCTTGGGAGTACCCATGGTCAGCATGCTTCTTTATGTCTGGAGCAGAGAATATCCGAATTCTCAGATCAGCATGTATGGCCTTGTCCAACTGAGGgtaagcttcactactaccatatatagaactcgatgccctttataggtcatcaatattggtttcaagtcttgtggagcaaattatgtttgattgtggtt-aatatactccatttctgcag
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TTTTTTCTTAGGAATACCTATGGTCAGCATGCTCCTTTATGTCTGGAGCCGAGAGAATCCAAATGCTCAGATAAATATATACGGCCTCGTCCAATTGAGGgtatgtaat-tcactaccatcaattg----caatgccagtttttgtgcttctcaatcggtgaataggtaggcgaagcataagaatagggatggtgctccaatggg--------------
upper sequence: LOC_Os05g09550.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G143817_T01 (Zea mays), 5'ss of exon 5
TTATTTCTTGGGAGTACCCATGGTCAGCATGCTTCTTTATGTCTGGAGCAGAGAATATCCGAATTCTCAGATCAGCATGTATGGCCTTGTCCAACTGAGGgta---agcttcactactaccatatatag-aactcgatgccctttataggtca-tcaatattggtttcaa---gtcttgtggagcaaattat--gtttgattgtggttaatatactccatt--tctgcag
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TTATGTCTTGGGATTACCTATGGTCAGCATGCTTGTTTATGTCTGGAGCCGAGAGAATCCAAATGCCCAGATAAATATATACGGCATCCTCCAATTGAAGgtatgtagtttcactaacaattgattttgcaattcacatttctgtgtcgctcagttggtgaaaggcaaagtatgacctgtgggcaatttgattaattcgttagtagttgatgtactctcttcttttgcagMapped 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|218492921|gb|FG948483.1|FG948483EST: GAGAATATCCGAATTCTCAGATCAGCATGTATGGCCTTGTCCAACTGAGG TCCTTTTATCTACCATGGGCAATGCTTGGGTTGGATGTGATATTTGGCTCA
genomic: GAGAATATCCGAATTCTCAGATCAGCATGTATGGCCTTGTCCAACTGAGGgtaagcttca ... atttctgcagTCCTTTTATCTACCATGGGCAATGCTTGGGTTGGATGTGATATTTGGCTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTATTTCTTGGGAGTACCCATGGTCAGCATGCTTCTTTATGTCTGGAGCAGAGAATATCCGAATTCTCAGATCAGCATGTATGGCCTTGTCCAACTGAGGgtaagcttcactactaccatatatagaactcgatgccctttataggtcatcaatattggtttcaagtcttgtggagcaaattatgtttgattgtggttaatatactccatttctgcag
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