Sequence
atgc intronic sequence ATGC exonic sequenceGGGAAGGAAGGCACCGGGCATCGAGAAGGTTGTCGAGAGAAGACAGCGGCGGATGATCAAGAACAGGGAGTCTGCCGCGAGGTCGCGCCAGAGGAAACAGgtgaaaagtcctttttgttgcaacttgcaactgtttagcatttacttgtcgaattgccttgccttctagtacttgcctgtagtgacatgtgtagcacata...
Basic information
species | Oryza sativa |
transcript | LOC_Os02g52780.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g52780.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G479760_T01 (Zea mays), 5'ss of exon 1
GGGAAGGAAGGCACCGGGCATCGAGAAGGTTGTCGAGAGAAGACAGCGGCGGATGATCAAGAACAGGGAGTCTGCCGCGAGGTCGCGCCAGAGGAAACAGgtgaaaagtcctttttgttgcaacttgcaactgtttagc---atttacttgtcgaattgccttgccttctagtacttgcctgtagtgacatgtgtagca-cata
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GGGAAGGAAGCCACCGGCTATGGAGAAGGTGGTTGAGAGGAGGCAGCGCCGGATGATCAAGAACCGGGAGTCGGCCGCGAGGTCGCGCCAAAGGAAACAGgt-aaatacatttgtcggtgggttctgcctttacctagttgtatcaattcgtcacgtttcctg--cttatattactagt-tatactgacacgtgtaacggtgta
upper sequence: LOC_Os02g52780.2 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S49_161V6.1 (Physcomitrella patens), 5'ss of exon 3
GGGAAGGAAGGCACCGGGCA-TCGAGAAGGTTGTCGAGAGAAGACAGCGGCGGATGATCAAGAACAGGGAGTCTGCCGCGAGGTCGCGCCAGAGGAAACAGgtgaaaagtcctttttgttgca-----acttgcaact--gtttagcatt-tacttgtcgaattgccttgccttcta-gtac---ttgcctgtagtgacatgtgtagcacata-----------------------
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-GAGGGGGTCGGATGGTGCAGTGGAGAAAGTAGTGGAAAGGCGGCAGCGGCGGATGATCAAGAACAGGGAATCGGCGGCGCGGTCTCGGGCCCGGAAGCAGgtatcagagttgcgttggggaagggggaggggggatttgggtaagcaatgcatgtggggaggggcggtggagtgagcgtgcggattgtgggcgagaggcggtggatcgctaaagatgtgtgatgtagcactgcagMapped 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|33674759|gb|CF302998.1|CF302998EST: GGATGATCAAGAACAGGGAGTCTGCCGCGAGGTCGCGCCAGAGGAAACAG GCATATATGATGGAATTGGAAGCTGAGGTAGCAAAACTTAAGGAGCTGAAC
genomic: GGATGATCAAGAACAGGGAGTCTGCCGCGAGGTCGCGCCAGAGGAAACAGgtgaaaagtc ... tatggagcagGCATATATGATGGAATTGGAAGCTGAGGTAGCAAAACTTAAGGAGCTGAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGAAGGAAGGCACCGGGCATCGAGAAGGTTGTCGAGAGAAGACAGCGGCGGATGATCAAGAACAGGGAGTCTGCCGCGAGGTCGCGCCAGAGGAAACAGgtgaaaagtcctttttgttgcaacttgcaactgtttagcatttacttgtcgaattgccttgccttctagtacttgcctgtagtgacatgtgtagcacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA