Sequence
atgc intronic sequence ATGC exonic sequencegtatgccagtgcattatccaatccctagcagaatgagaagtattcttcaacttcaattatgcacctcatttttgtttttcattattatgctttgctgttaaagGCATATCCACAGGAGAAAGTTGGAGTGTTTGTTCAGCGTGGCAGGGGTGGGCCTCTTTCTGTAGTTGAGTACAGTGAAATGGATGCAGCTATGACTACTG
Basic information
species | Oryza sativa |
transcript | LOC_Os08g10600.3 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g10600.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G155729_T03 (Zea mays), 3'ss of exon 9
gtatgccagtgcattatccaatccctagcagaatgagaagtattcttcaacttcaattatgcacctcatttttgtttttcattattatgctttgctgttaaagGCATATCCACAGGAGAAAGTTGGAGTGTTTGTTCAGCGTGGCAGGGGTGGGCCTCTTTCTGTAGTTGAGTACAGTGAAATGGATGCAGCTATGACTACTG
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gtagggccatagatttccca--tcctaatagattgacag---tttttta--ttgaactatgtgtctcaagagtgttta-cattat-gttctgtgctgttca-gGCATATCCACAAGAGAAAGTTGGAGTATTTGTTCAGCGTGGAAAGGGTGGACCCCTCTCTGTAGTTGAATACAGTGAAATGGATGCAGCTATGACAACTG
upper sequence: LOC_Os08g10600.3 (Oryza sativa), 3'ss of exon 10
lower sequence: AT2G35020.1 (Arabidopsis thaliana), 3'ss of exon 10
---------------------gtatgccagtgcattatccaatccctagcagaatgagaagtattcttcaact--tcaattatgcacctcatttttgtt----tttcattattatgctttgctgttaaa---gGCATATCCACAGGAGAAAGTTGGAGTGTTTGTTCAGCGTGGCAGGGGTGGGCCTCTTTCTGTAGTTGAGTACAGTGAAATGGATGCAGCTATGACTACTG
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gtatattcagatacctttctaattcattggttccatgaactattctatattcagttttcaccttcctgcaattagtttctcccgggccaaatcatagttaagtttttaagcgagtagcttgttatgaaaacagGCATATCCACAGGAAAAAGTTGGAGTATTTGTAAGGAGGGGAAAAGGTGGGCCTTTGACTGTAGTTGAGTACACAGAGCTTGACCAGTCTATGGCTTCTGMapped 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|29616664|gb|CB621676.1|CB621676EST: GATATTTCATTGACAAGGGCGTGTCTGCTGCTGCAAAGGTCGTAAGGAAG GCATATCCACAGGAGAAAGTTGGAGTGTTTGTTCAGCGTGGCAGGGGTGGG
genomic: GATATTTCATTGACAAGGGCGTGTCTGCTGCTGCAAAGGTCGTAAGGAAGgtatgccagt ... gctgttaaagGCATATCCACAGGAGAAAGTTGGAGTGTTTGTTCAGCGTGGCAGGGGTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttcaattatgcacctcatttttgtttttcattattatgctttgctgttaaagGCATATCCACAGGAGAAAGTTGGAGTGTTTGTTCAGCGTGGCAGGGGTGGGCCTCTTTCTGTAGTTGAGTACAGTGAAATGGATGCAGCTATGACTACTG
ctttgct CT-rich tract
tcatttttgtttttca TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgccagtgcattatccaatccctagcagaatgagaagtattcttcaacttcaattatgcacctcatttttgtttttcattattatgctttgctgttaaagGCATATCCACAGGAGAAAGTTGGAGTGTTTGTTCAGCGTGGCAGGGGTGGGCCTCTTTCTGTAGTTGAGTACAGTGAAATGGATGCAGCTATGACTACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT