Sequence
atgc intronic sequence ATGC exonic sequenceGATTCTGTGCAGCTGGGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACGgtatggtgtgaactcttctttttttataaaaaaaatgtccataagcaaggaaaagtggtctggattgcatctgatactggggttcctaacattggtttat...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g47410.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g47410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv10s0116g01210.t01 (Vitis vinifera), 5'ss of exon 8
GATTCTGTGCAGCTGGGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACGgtatg-gtgtgaactcttctttttttataaaaaaaatgtccataagcaaggaaaagtggtctggattgcatctgatactggggttcctaacattggtttat------
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GGTACTGTGCCGGAGGTTGTGCAGCAATTGCAGATTCTGGAACTTCTTTGTTGGCAGGTCCAACGgtatgtatcagtactcttaagagtttg---gttaattgtttttatttta---acttctgtccc-atcaaatattcttctaggatttattgtactagttgatacactt
upper sequence: LOC_Os01g47410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: EFJ34434 (Selaginella moellendorffii), 5'ss of exon 6
GATTCTGTGCAGCTGGGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACGgtatggtgtgaactcttctttttttataaaaaaaatgtccataagcaaggaaaagtggtctggattgcatctgatactggggttcctaacattggtttat
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GGTTCTGTGCTAAAGGATGTGCTGCAATTGCAGATTCTGGAACTTCACTGCTTGCTGGTCCTACGgtatgttacaagc-caaaagcagccatctaacagttgttgttttgacag---------------------------------------------------
upper sequence: LOC_Os01g47410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: EFJ34433 (Selaginella moellendorffii), 5'ss of exon 6
GATTCTGTGCAGCTGGGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACGgtatggtgtgaactct---tctttttttataaaaaaaatgtccataagcaaggaaaagtggtctggattgcatctgatactggggttcctaacattggtttat
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GGTTCTGTGCTAAAGGATGTGCTGCAATTGCAGATTCTGGAACTTCACTGCTTGTTGGTCCTACGgtatgttacaagccaaaagcagtcatctacagttgttgttttgacag--------------------------------------------------------
upper sequence: LOC_Os01g47410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: EFJ34432 (Selaginella moellendorffii), 5'ss of exon 6
GATTCTGTGCAGCTGGGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACGgtatggtgtgaactcttctttttttataaaaaaaatgtccataagcaaggaaaagtggtctggattgcatctgatactggggttcctaacattggtttat
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GGTTCTGTGCTAAAGGATGTGCTGCAATTGCAGATTCTGGAACTTCACTGCTTGTTGGTCCTACGgtatgttacaagc-caaaagcagtcatcttacagttgttgttttgacag---------------------------------------------------
upper sequence: LOC_Os01g47410.1 (Oryza sativa), 5'ss of exon 8
lower sequence: EFJ06917 (Selaginella moellendorffii), 5'ss of exon 6
GATTCTGTGCAGCTGGGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACGgtatggtgtgaactcttctttttttataaaaaaaatgtccataagcaaggaaaagtggtctggattgcatctgatactggggttcctaacattggtttat
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GGTTCTGTGCTAAAGGATGTGCTGCAATTGCAGATTCTGGAACTTCACTGCTTGCTGGTCCTACGgtatgttacaagc-caaaagcagtcatctaacagttgttgttttgacag---------------------------------------------------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|2799538|gb|AA752527.1|AA752527EST: GGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACG GCCATAATTACTCAGATAAATGAAAAGATTGGTGCTACTGGGGTAGTCAGT
genomic: GGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACGgtatggtgtg ... aactatgcagGCCATAATTACTCAGATAAATGAAAAGATTGGTGCTACTGGGGTAGTCAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTCTGTGCAGCTGGGTGTGCAGCAATAGCAGATTCTGGAACTTCACTGCTTACTGGTCCCACGgtatggtgtgaactcttctttttttataaaaaaaatgtccataagcaaggaaaagtggtctggattgcatctgatactggggttcctaacattggtttat
- - - - - - - - - - - - - - GCAGAT