Sequence
atgc intronic sequence ATGC exonic sequencegtaaatatcgttccattatatttattgtatcttgtggttaatggctattaggaaaaccaaagttgatctcgggattttaccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAACAGCCTCACCTCCCGTTCCGGTGCAGCCACAGTTGCCTCCGGCGGCAGTA
Basic information
species | Oryza sativa |
transcript | LOC_Os03g02150.2 |
intron # | 24 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g02150.2 (Oryza sativa), 3'ss of exon 24
lower sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 26
gta-aatatcgttccatt-atatttattgtatcttgtggttaatggctattaggaaaaccaaagttgatctcgggattttaccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAACAGCCTCACCTCCCGTTCCGGTGCAGCCACAGTTGCCTCCGGCGGCAGTA
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gtatagtctagctccatttatttaaattatggttcattgctaagtgtaatttgtaatgcagaagttgattgaaagattttggtaaacagGTTGAAAGAGTTCATCAAAGAACATCTGGTTGATATCCCAAGGACTCAGGTCGCCCCACCTCGCGCAGCAGTCCAGCCACAGTTGCCTACTACAGCACCT
upper sequence: LOC_Os03g02150.2 (Oryza sativa), 3'ss of exon 24
lower sequence: GRMZM2G092741_T01 (Zea mays), 3'ss of exon 11
gta-aatatcgttccattatattta-ttgtatcttgtggttaatggctattaggaaaaccaaagttgatctcgggattttaccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAACAGCCTCACCTCCCGTTCCGGTGCAGCCACAGTTGCCTCCGGCGGCAGTA
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gtatagtcttgctccttttctttaaattatggcttattgctaaatgctaatgggaatgcaaaaaatgattgggtggttttggtaaacagGTTGAAAGAGTTCGTCAAGGAACATTTGATTGATATCCCAAGGACTCAGGCTGCCCCACCTATGGCAATGGTCCAGCCACAGTTGCTTACTGCAGCACCTMapped 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|163920544|gb|EG710644.1|EG710644EST: ACGCAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGA GTTGAAAGAGTACATCAAGGAACATTTAATTGATAGCCCAAGGGTACAAAC
genomic: ACGCAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGAgtaaatatcg ... taccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
EST:
gi|86436923|gb|CI118645.1|CI118645EST: ACGCAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGA GTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
genomic: ACGCAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGAgtaaatatcg ... taccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
EST:
gi|29613068|gb|CB618081.1|CB618081EST: ACACAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGA GTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
genomic: ACGCAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGAgtaaatatcg ... taccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
EST:
gi|25805001|gb|CA760962.1|CA760962EST: GGAGATCAGTATNTGACATTCGA GTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
genomic: GGAGATCAGTATTTGACATTCGAgtaaatatcg ... taccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
EST:
gi|87024721|gb|CI259436.1|CI259436EST: CTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGA GTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
genomic: CTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGAgtaaatatcg ... taccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAAC
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 1 RNA-Seqlibrary.
Block sizes:
75 (upstream exon),
66 (downstream exon)
Score:
56GTCAGAATCGAAACTGATCCACAAGATAGAACGCAACTCCGGCTCACAGTGGCATCAGGAGATCAGTATTTGACATTCGAgtaaatatcg ... taccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAACAGCCTCACCTCCCGTTCCGGTGCAGCCACAGTTGCCTCCGGCGGCAGTA
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtggttaatggctattaggaaaaccaaagttgatctcgggattttaccaaacagGTTGAAAGAGTACATCAAGGAACATTTAATTGATATCCCAAGGGTACAAACAGCCTCACCTCCCGTTCCGGTGCAGCCACAGTTGCCTCCGGCGGCAGTA
ttttacc CT-rich tract
atttta TA-rich tract