Sequence
atgc intronic sequence ATGC exonic sequenceGGTTTGACCGGGCTCCTGCAGTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAGgtagtcaattcaatgtgcctccgtaatcagtttactgttgttcatatccctgatcaaatgttcatctgtttttacag
Basic information
species | Oryza sativa |
transcript | LOC_Os08g02350.1 |
intron # | 31 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g02350.1 (Oryza sativa), 5'ss of exon 31
lower sequence: AT5G24740.1 (Arabidopsis thaliana), 5'ss of exon 45
GGTTTGACCGGGCTCCTGCAGTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAGgtagtcaattcaatgtgcctccgtaatcagtttactgttgttcatatc-cctgat-caaatgttcat-ctgtttttacag----------------------------------------------------
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GGACTCACTGGTCTCCTTCAATCACCAATAAGAGGAGCTGAGAAACATGGTCTTCCAGGCGTTATCTCAGgtatttaagcgagaaccaccgctcaagtcatctatagacattcaagacatttgatgttcgtgtacacgctgtccttttgtttctggctttctaattttatgcatgttaactgggtgcctatatatggttcag
upper sequence: LOC_Os08g02350.1 (Oryza sativa), 5'ss of exon 31
lower sequence: Vv15s0024g00240.t01 (Vitis vinifera), 5'ss of exon 29
GGTTTGACCGGGCTCCTGCAGTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAGgtagtcaattcaatgtgcctccgtaatcagtttactgttgttcatatcc-ctgatcaaatgttcatctgtttttacag-----------------------------------------------------------------------------------
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GGACTCACTGGTCTCCTCCAATCGCCAATTAAAGGTGCTGAGAAACATGGTCTTCCTGGTGTTCTCTCAGgta-ttattacactgataaactgcatcatatttgt--ctgaaaacatcagctgcggcagcttacactgatattgggaatatacaatcaaaagaaatgcacagcctctctgttggttgcctgactgttgatggtgtgtttcctgcccatcccttttctgcagMapped 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|58691014|gb|CK079701.1|CK079701EST: GTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAG GTATAGCAATGGGAACAGCAGGGCTTGTAGCCAGGCCTATGGCCAGCATTC
genomic: GTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAGgtagtcaatt ... gtttttacagGTATAGCAATGGGAACAGCAGGGCTTGTAGCCAGGCCTATGGCCAGCATTC
EST:
gi|58692108|gb|CK080795.1|CK080795EST: GTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAG GTATAGCAATGGGAACAGCAGGGCTTGTAGCCAGGCCTATGGCCAGCATTC
genomic: GTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAGgtagtcaatt ... gtttttacagGTATAGCAATGGGAACAGCAGGGCTTGTAGCCAGGCCTATGGCCAGCATTC
EST:
gi|58666488|gb|CK055174.1|CK055174EST: GTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAG GTATAGCAATGGGAACAGCAGGGCTTGTAGCCAGGCCTATGGCCAGCATTC
genomic: GTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAGgtagtcaatt ... gtttttacagGTATAGCAATGGGAACAGCAGGGCTTGTAGCCAGGCCTATGGCCAGCATTC
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:
62 (upstream exon),
49 (downstream exon)
Score:
6GGTTTGACCGGGCTCCTGCAGTCACCAATCAAGGGTGCCGAGAAACATGGTCTTCCTGGAGTTATCTCAGgtagtcaatt ... gtttttacagGTATAGCAATGGGAACAGCAGGGCTTGTAGCCAGGCCTATGGCCAGCATTCTTGAAGCGACTGGCAGAACTGCACAGAGCATAAGAAACCGAAGCAACCC
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