Sequence
atgc intronic sequence ATGC exonic sequenceTGTCGTTGCGCAGTTGATGTACCTTGAGTGGATGAATAGTAAAGAACCTGTTTACATATACATCAACTCCACAGGAACAGCTCGTGATGATGGTGAACCAgtaagcatgcttatcttgttcggttcatggctcgcagtcaactattctctaccgttttgatagtattaagtagccttttgtcattaattatcatcataat...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g22430.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g22430.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G030072_T03 (Zea mays), 5'ss of exon 1
TGTCGTTGCGCAGTTGATGTACCTTGAGTGGATGAATAGTAAAGAACCTGTTTACATATACATCAACTCCACAGGAACAGCTCGTGATGATGGTGAACCAgtaagcatgcttatcttgttcggttcatggctcgcagtcaactattctctaccgttttgatagtattaagtagccttttg-tcattaattatcatcataat------------------------------------------------------------------------------------------------
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CATTGTTGCCCAGTTGATGTACCTTGAATGGATGAACAGTAAAGAACCTGTTTATATATACATCAACTCAACTGGAACGGCTCGCGATGATGGTGAACCGgtaagcaagatt-----gttcaattggtgactt-cagtcaagtatttccagtattggggtcagtaccg-gtagaatttggcttattcatgttcttc-taattagggtagactataaggtctctttagcatttgtatcatgtcgtcatggttgctatatagtcaaatagttctttaattgattgtctgtatttgtcag
upper sequence: LOC_Os03g22430.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT1G09130.3 (Arabidopsis thaliana), 5'ss of exon 3
TGTCGTTGCGCAGTTGATGTACCTTGAGTGGATGAATAGTAAAGAACCTGTTTACATATACATCAACTCCACAGGAACAGCTCGTGATGATGGTGAACCAgtaagcatgcttatcttgttcggttcatggctcgcagtcaactattctctaccgttttgatagtattaagtagccttttgtcattaattatcatcataat
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AGTTGTCGCTGAGCTAATGTATCTTCAGTGGCTGGATCCCAAGGAACCCATTTACATTTACATCAACTCCACAGGGACCACTCGTGATGATGGAGAGACGgtaagtttgaaaactttgtgaatcttttggacc-------atttctcttgttagttctaatttcagtgaataac------tcactaaacag---------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|3760393|gb|C97647.1|C97647EST: TTTACATATACATCAACTCCACAGGAACAGCTCGTGATGATGGTGAACCA GTTGGAATGGAGAGTGAAGGTTTTGCTATCTATGATGCCATGATGCGGATG
genomic: TTTACATATACATCAACTCCACAGGAACAGCTCGTGATGATGGTGAACCAgtaagcatgc ... aaattgtcagGTTGGAATGGAGAGTGAAGGTTTTGCTATCTATGATGCCATGATGCGGATG
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
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TGTCGTTGCGCAGTTGATGTACCTTGAGTGGATGAATAGTAAAGAACCTGTTTACATATACATCAACTCCACAGGAACAGCTCGTGATGATGGTGAACCAgtaagcatgcttatcttgttcggttcatggctcgcagtcaactattctctaccgttttgatagtattaagtagccttttgtcattaattatcatcataat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC