Sequence
atgc intronic sequence ATGC exonic sequencegtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
Basic information
species | Oryza sativa |
transcript | LOC_Os06g49990.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G116434_T01 (Zea mays), 3'ss of exon 10
gtatt---tatattcttacactaaggatgtctgcagttcaaagggca-tgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
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gtgtggagtatttcatcacacta-ggatttgtgcaacactgtaaatagcatcttttttattggcttggatt-tggaatagcatattgacagactt-tattgtccttgcagACACATAGGATAAAGAAGTTTGTTTTGCATACAAACTTCCCTGGCCACTCAGATTTCAATTCATATAAGAAATGCAACTTTGTTATATACGACGCTGAAG
upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA01G37380.1 (Glycine max), 3'ss of exon 10
gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgc--ttgctaaccttg--ctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
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-------------------------gtttgtaacttacatcatgcttttgtttctatacatagtgacacaactgataatagaaactcctacatgtctgttttattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGTAACTTTGTTATCCATGGCTCAGATT
upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA11G07910.1 (Glycine max), 3'ss of exon 10
gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
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--gtttgtaa-cttacatcatg-----cttttgtttctatacaatgtgccacagcacaactgataatggaaact--------cccacatgtctgttgtattttcagACTCACAAAATCAAGAAGTTTGTGTTACACACCAACTTCCCTGGTCATGCTGATTTCAATTCTTACATTAAGTGCAACTTTGTTGTCTATGGCTCAGATT
upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 10
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 10
gtatttatattcttacactaaggatgtctgcagttcaaagggcatgtttttttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
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gtactcctttttattgtgtgtcaaaatatatattacttcaataatattgtgcatatata-tcatcgtacttg--aaagttctcagattattgtattggatttgcagACTCATAAAATCAAGAAATTTGTCTTGCACACAAACTATCCTGGGCATGCAGATTTTAATTCATACATGAAATGCAACTTTGTTATCTATGGTTCTGATTMapped 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|33687914|gb|CF316153.1|CF316153EST: ATTTTTACAACTACTTCTCTCGTGGTATTGATATCTTATTTGATGGGCAG ACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCA
genomic: ATTTTTACAACTACTTCTCTCGTGGTATTGATATCTTATTTGATGGGCAGgtatttatat ... ctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcagagactcaaaatgcttgctaaccttgctctacatttattttctccttgcagACACACAGGATAAAGAAGTTTGTTTTACACACAAACTTCCCTGGTCATTCAGATTTCAATTCCTATATGAAGTGTAACTTTGTTATCTATGATGCCGAAG
tgctaac putative branch site (score: 1)
ctctacatttattttc putative PPT
tctacatttatttt TA-rich tract