Sequence
atgc intronic sequence ATGC exonic sequencegtaaaacaggcaacactaattttcccatacaggcttcattactaaggagccctgagagttgagacttatgcatccttcctgatcatctattgacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATTGTCACCATCTGTGTAACAATCGTTGGTACATATTTCCTGCTGAATGCGG
Basic information
species | Oryza sativa |
transcript | LOC_Os02g34690.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g34690.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA08G13370.1 (Glycine max), 3'ss of exon 10
------------gtaaaacaggcaacactaattttcccatacaggcttcattactaaggagccctgagagttgagacttatgcatccttcctgatcatctattg-acagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATTGTCACCATCTGTGTAACAATCGTTGGTACATATTTCCTGCTGAATGCGG
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gaaactgctctttttaagtaaaaaatgtgtatatttcagtggaagctgtgt-------gaacctgcacatttgg--cttatatattttttcttcctttgtggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATCGTTACCATTTGTGTGACAATTGTGGGGACATACTTTTTGTTAAATGCTG
upper sequence: LOC_Os02g34690.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 10
gtaaaacaggcaacactaattttccca---tacaggcttcatta----ctaaggagccctgagagttgagacttatgcatccttcctgatcatctattgacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATTGTCACCATCTGTGTAACAATCGTTGGTACATATTTCCTGCTGAATGCGG
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ttgaaactggtctttttaagtaaaaaaatgtgtatattttagtggaagccaggtgaaccttcacattgg--cttatatattttttctc-tctttggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTCTGATTCTTATCATCGTTACCGTTTGTGTGACAATTGTGGGGACATACTTTTTGTTAAATGCTG
upper sequence: LOC_Os02g34690.1 (Oryza sativa), 3'ss of exon 10
lower sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaaaacaggcaacactaatttt-cccatacaggcttcattactaaggagccc--tgagagttgagacttatgcatccttcctgatc--atctatt-gacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATTGTCACCATCTGTGTAACAATCGTTGGTACATATTTCCTGCTGAATGCGG
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--tctttaagtaggactaactttgtctttgctaatcatataacgacgaaagtaaattgtagtggctatttttgaaagttgtctgtttttgtttgttcgacagGTCTACTATGTGTATGGATTCATGTTACTGGTTTTTGTGATTCTCGTCATAGTGACGGTGTGTGTGACAATCGTGGGTACATATTTCCTGCTGAATGCAG
upper sequence: LOC_Os02g34690.1 (Oryza sativa), 3'ss of exon 10
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 10
gtaaaacaggcaacactaattt----tcccatacaggcttcattactaaggagccctgagagttgagact--tatgcatccttcctgatcatctatt-gacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATTGTCACCATCTGTGTAACAATCGTTGGTACATATTTCCTGCTGAATGCGG
||| | | | ||| | |||| | || | || | || | || | | ||||| | || | | | | |||||| || ||||||||||| || |||||||| || || |||| || || ||||| || ||||||||||||| || || ||||||||| || ||||||| |
-taattctctgttcttttattggagatgccatttaaattta--tgctgactgtgtttgtggcttaatcttattatgctgctttgtgatttttgtgctcaacagGTATATTATGTATATGGCTTTATGTTGCTTGTTTTCATGATTCTTATGATTGTTACAGTCTGTGTAACAATTGTGGGGACATATTTCTTGTTGAATGCTGMapped 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|40724719|gb|CK431287.1|CK431287EST: GCATCTTCATTGAGATGTACTTTGTCTTCACATCATTTTGGAACTACAAG GTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATT
genomic: GCATCTTCATTGAGATGTACTTTGTCTTCACATCATTTTGGAACTACAAGgtaaaacagg ... ctattgacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATT
EST:
gi|29642291|gb|CB647298.1|CB647298EST: ATCATTTTGGAACTACAAG GTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATT
genomic: ATCATTTTGGAACTACAAGgtaaaacagg ... ctattgacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATT
EST:
gi|163920596|gb|EG709603.1|EG709603EST: GCATCTTCATTGAGATGTACTTTGTCTTCACATCATTTTGGAACTACAAG GTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATT
genomic: GCATCTTCATTGAGATGTACTTTGTCTTCACATCATTTTGGAACTACAAGgtaaaacagg ... ctattgacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATT
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),
73 (downstream exon)
Score:
7CCTCACGCCTTCTGTCATTGCCCTCATGGGAGGACTGCTTCCTTTTGGTAGCATCTTCATTGAGATGTACTTTGTCTTCACATCATTTTGGAACTACAAGgtaaaacagg ... ctattgacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATTGTCACCATCTGTGTAACAATCGTTGGTACATATTTCCTGCTGAATGCGG
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaaggagccctgagagttgagacttatgcatccttcctgatcatctattgacagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATTGTCACCATCTGTGTAACAATCGTTGGTACATATTTCCTGCTGAATGCGG
tcctgat putative branch site (score: 7)
atctatt TA-rich tract