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mmu_circSlc8b1_1079
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc8b1_1079
mm39_Chr. Position ID:
chr5|120658838|120668461|+
Gene name:
Slc8b1
Transcript:
ENSMUST00000111890.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,194,980,3225,3430,4885,6967,8736,9542
Genomic length:
9623
Exon/intron sizes in nt:
113,168,108,60,131,142,122,154,81
Flanking exon/introns:
chr5:120657983-120658838|chr5:120668461-120669145
Splice length:
1079
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222348, circAtlas: mmu-Slc8b1_0002
Human Ortholog IDs:
Mature spliced Sequence:
CCCCCATGGTGTCACCTTCCTGGCCTTTGGAAATGGCGCTCCAGACATCTTCAGTGCTTTAGTGGCTTTCTCAGACCCACGTACTGCCGGCCTGGCCATCGGGGCTCTGTTTGGTGCAGGGGTGCTGGTCACCACTGTGGTGGCTGGAGGCATCACCATCCTGCATCCCTTCATGGCTGCCTCCAGGCCCTTCCTCAGGGACATCGCTTTCTACATGGTGGCTGTGTTCCTAACCTTCACTGCACTCTATCTCGGCAGGATCACGCTGACGTGGGCGCTGGGTTACCTGGGCCTCTACGTGTTCTACGTGGTCACGGTCATCATCTGCACTTGGGTCTACCAACGGCAGCGAAGCAGGTCTCTGGTCCACTCCATATCGGAGACACCAGAGTTGCTGTCTGAGTCAGAGGAGGACCAGATGTCTTCCAACACCAACAGCTATGACTATGGAGATGAATACCGGCCTCTGTTGCTGGGTCGGGAGACCACTGTCCAGATCCTGATCCAAGCCCTGAATCCCTTGGACTACAGGAAGTGGAGAACTCAGTCGATATCCTGGAGGGTCCTGAAGGTAGTCAAGTTGCCTGTGGAGTTCTTGTTGCTGCTCACAGTACCGGTTGTGGACCCCGACAAGGACGATCGGAATTGGAAACGGCCACTCAACTGTCTGCAGCTGGTCATCAGCCCCCTGGTCCTGGTCCTGACCCTGCAGTCGGGGGTCTATGGCATCTATGAGATCGGCGGTCTCCTTCCTGTCTGGGCTGTGGTGGTGATCGTGGGCACAGCGCTGGCTTCAGTGACCTTCTTTGCCACGTCTAACAGAGAACCCCCTAGACTGCACTGGCTCTTTGCTTTCCTGGGTTTCCTGACCAGTGCCCTGTGGATCAATGCAGCCGCCACAGAGGTGGTGAACATATTACGGTCCCTGGGTGTGATCTTCCGCCTGAGCAACACCGTCCTAGGGCTGACCCTCCTGGCCTGGGGAAACAGCATTGGAGATGCCTTCTCAGATTTCACGCTGGCCCGCCAAGGATACCCTCGGATGGCCTTCTCCGCCTGTTTCGGGGGCATCATCTTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAAGGATACCCTCGGATG
59.96
GCAGTACGTGGGTCTGAGAA
59.4
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGGAAACAGCATTGGAGA
59.22
ACTGAAGATGTCTGGAGCGC
60.11
155
PCR template sequence:
TGGGGAAACAGCATTGGAGATGCCTTCTCAGATTTCACGCTGGCCCGCCAAGGATACCCTCGGATGGCCTTCTCCGCCTGTTTCGGGGGCATCATCTTCACCCCCATGGTGTCACCTTCCTGGCCTTTGGAAATGGCGCTCCAGACATCTTCAGTGCTTTAGTGGCTTTCTCAGACCCACGTACTGCCGGCCTGGCCATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-128-3p(1), mmu-miR-351-5p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCATCATCTTCACCCCCATGGTGTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC8B1_1079_ORF_1
1.296
0.38218194
0.996570023
969
ORF sequence:
ATGGCTGCCTCCAGGCCCTTCCTCAGGGACATCGCTTTCTACATGGTGGCTGTGTTCCTAACCTTCACTGCACTCTATCTCGGCAGGATCACGCTGACGTGGGCGCTGGGTTACCTGGGCCTCTACGTGTTCTACGTGGTCACGGTCATCATCTGCACTTGGGTCTACCAACGGCAGCGAAGCAGGTCTCTGGTCCACTCCATATCGGAGACACCAGAGTTGCTGTCTGAGTCAGAGGAGGACCAGATGTCTTCCAACACCAACAGCTATGACTATGGAGATGAATACCGGCCTCTGTTGCTGGGTCGGGAGACCACTGTCCAGATCCTGATCCAAGCCCTGAATCCCTTGGACTACAGGAAGTGGAGAACTCAGTCGATATCCTGGAGGGTCCTGAAGGTAGTCAAGTTGCCTGTGGAGTTCTTGTTGCTGCTCACAGTACCGGTTGTGGACCCCGACAAGGACGATCGGAATTGGAAACGGCCACTCAACTGTCTGCAGCTGGTCATCAGCCCCCTGGTCCTGGTCCTGACCCTGCAGTCGGGGGTCTATGGCATCTATGAGATCGGCGGTCTCCTTCCTGTCTGGGCTGTGGTGGTGATCGTGGGCACAGCGCTGGCTTCAGTGACCTTCTTTGCCACGTCTAACAGAGAACCCCCTAGACTGCACTGGCTCTTTGCTTTCCTGGGTTTCCTGACCAGTGCCCTGTGGATCAATGCAGCCGCCACAGAGGTGGTGAACATATTACGGTCCCTGGGTGTGATCTTCCGCCTGAGCAACACCGTCCTAGGGCTGACCCTCCTGGCCTGGGGAAACAGCATTGGAGATGCCTTCTCAGATTTCACGCTGGCCCGCCAAGGATACCCTCGGATGGCCTTCTCCGCCTGTTTCGGGGGCATCATCTTCACCCCCATGGTGTCACCTTCCTGGCCTTTGGAAATGGCGCTCCAGACATCTTCAGTGCTTTAG
Peptide sequence:
MAASRPFLRDIAFYMVAVFLTFTALYLGRITLTWALGYLGLYVFYVVTVIICTWVYQRQRSRSLVHSISETPELLSESEEDQMSSNTNSYDYGDEYRPLLLGRETTVQILIQALNPLDYRKWRTQSISWRVLKVVKLPVEFLLLLTVPVVDPDKDDRNWKRPLNCLQLVISPLVLVLTLQSGVYGIYEIGGLLPVWAVVVIVGTALASVTFFATSNREPPRLHWLFAFLGFLTSALWINAAATEVVNILRSLGVIFRLSNTVLGLTLLAWGNSIGDAFSDFTLARQGYPRMAFSACFGGIIFTPMVSPSWPLEMALQTSSVL
IRESfinder result
IRESfinder score
0.476203615
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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