top of page
mmu_circKremen1_255
Basic information of circular RNA
PanCircBase ID:
mmu_circKremen1_255
mm39_Chr. Position ID:
chr11|5188410|5193937|-
Gene name:
Kremen1
Transcript:
ENSMUST00000020662.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,5364
Genomic length:
5527
Exon/intron sizes in nt:
92,163
Flanking exon/introns:
chr11:5165531-5188410|chr11:5193937-5211434
Splice length:
255
Other database IDs:
circAtlas: mmu-Kremen1_0003
circBase: hsa_circ_0116394, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_36273
Human Ortholog IDs:
Mature spliced Sequence:
AGTGCTTCACAGCCAACGGTGCAGATTACAGGGGAACACAGAGCTGGACAGCGCTGCAAGGTGGGAAGCCATGTCTGTTCTGGAACGAGACTTTCCAGCATCCGTACAACACGCTGAAGTACCCCAACGGGGAAGGAGGACTGGGCGAGCACAATTATTGCAGAAATCCAGATGGAGACGTGAGCCCTTGGTGCTACGTGGCCGAGCATGAGGACGGAGTCTACTGGAAGTACTGTGAAATTCCTGCCTGCCAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGAGACGTGAGCCCTTG
60.46
AGACATGGCTTCCCACCTTG
59.96
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGAGACGTGAGCCCTTG
60.46
CAGACATGGCTTCCCACCTT
59.96
162
PCR template sequence:
TATTGCAGAAATCCAGATGGAGACGTGAGCCCTTGGTGCTACGTGGCCGAGCATGAGGACGGAGTCTACTGGAAGTACTGTGAAATTCCTGCCTGCCAGAAGTGCTTCACAGCCAACGGTGCAGATTACAGGGGAACACAGAGCTGGACAGCGCTGCAAGGTGGGAAGCCATGTCTGTTCTGGAACGAGACTTTCCAGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-101a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGCCTGCCAGAAGTGCTTCACAGC
siRNA sets
TGAAGCACTTCTGGCAGGC, TGTGAAGCACTTCTGGCAG, CTGTGAAGCACTTCTGGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKREMEN1_255_ORF_1
0.9065
0.032336225
0.095662791
165
ORF sequence:
ATGAGGACGGAGTCTACTGGAAGTACTGTGAAATTCCTGCCTGCCAGAAGTGCTTCACAGCCAACGGTGCAGATTACAGGGGAACACAGAGCTGGACAGCGCTGCAAGGTGGGAAGCCATGTCTGTTCTGGAACGAGACTTTCCAGCATCCGTACAACACGCTGA
Peptide sequence:
MRTESTGSTVKFLPARSASQPTVQITGEHRAGQRCKVGSHVCSGTRLSSIRTTR
IRESfinder result
IRESfinder score
0.284512097
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page