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mmu_circClasp1_1028
Basic information of circular RNA
PanCircBase ID:
mmu_circClasp1_1028
mm39_Chr. Position ID:
chr1|118431549|118453185|+
Gene name:
Clasp1
Transcript:
ENSMUST00000049404.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
13,14,15,16,17,18,19,20,21,22
Exon/intron offsets:
0,1076,1662,3120,4995,5752,6386,18007,19501,21477
Genomic length:
21636
Exon/intron sizes in nt:
13,67,16,07,81,68,50,10,00,00,00,000
Flanking exon/introns:
chr1:118430728-118431549|chr1:118453185-118459707
Splice length:
1028
Other database IDs:
CIRCpedia: MMU_CIRCpedia_4508, circAtlas: mmu-Clasp1_0029
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_92705
Human Ortholog IDs:
Mature spliced Sequence:
GCATCTGTCATCAGTTCTGGGAAATAAGTTTGATCATGGAGCTGAAGCCATTATGCCAACTATCTTTAATTTAATCCCGAACAGTGCCAAAATTATGGCTACTTCTGGTGTTGTAGCTGTTAGGCTAATCATTCGGCACACTCACATCCCTCGGCTGATCCCTGTCATAACCAGCAACTGTACCTCTAAGTCTGTCGCCGTCAGAAGGCGCTGTTTTGAATTTTTAGATTTGCTTTTACAAGAATGGCAGACACATTCACTAGAAAGACATATATCAGTATTAGCTGAAACAATAAAGAAAGGAATACACGACGCTGATTCTGAAGCGAGAATAGAAGCCAGGAAGTGCTACTGGGGTTTCCACAGTCACTTCAGCCGAGAAGCAGAACACCTGTACCACACTTTGGAGTCCTCGTATCAGAAGGCCCTACAGTCCCACTTGAAGAACTCGGACAGCATCGTGTCTCTGCCCCAGTCAGACCGATCCTCTTCCAGCTCTCAAGAGAGTCTCAACCGGCCACTTTCAGCCAAAAGAAGTCCCACTGGCAGCACTGCATCCAGAGGCTCTACAGTTAGTACCAAATCTGTGTCGACGACAGGATCTCTCCAGCGATCTCGAAGTGATATTGATGTGAACGCAGCAGCCAGTGCCAAATCCAAAGTCTCCTCATCCTCAGGATCCCCCGCCTTCAGCTCTGCAGCAGCACTGCCCCCAGGATCCTATGCGTCCCTAGGTCGGATCCGCACGAGACGGCAGAGCTCGGGGAGCACCACCAATGTCGCCTCCACACCCTCCGACAGTCGGGGCCGCAGTCGCGCCAAAGTGGTTTCACAGTCTCAGCGATCCAGATCTGCTAACCCTGCTGGTGCTGGCAGCCGGTCAAGTTCCCCTGGGAAGCTTTTGGGAAGTGGACTTGCTGGGGGTTCCTCCAGAGGCCCACCGGTAACACCATCCTCAGAAAAACGGAGCAAGATCCCCAGGAGTCAGGGATGTAGCCGAGAAACAAGTCCTAACCGGATTGGATTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCGGTAACACCATCCTC
60.11
TGGCTTCAGCTCCATGATCA
59.09
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCGGTAACACCATCCTC
60.11
GGCATAATGGCTTCAGCTCC
59.04
148
PCR template sequence:
TCCAGAGGCCCACCGGTAACACCATCCTCAGAAAAACGGAGCAAGATCCCCAGGAGTCAGGGATGTAGCCGAGAAACAAGTCCTAACCGGATTGGATTAGGCATCTGTCATCAGTTCTGGGAAATAAGTTTGATCATGGAGCTGAAGCCATTATGCCAACTATCTTTAATTTAATCCCGAACAGTGCCAAAATTATGGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-221-3p(1), mmu-miR-34c-5p(1), mmu-miR-222-3p(1), mmu-miR-127-3p(1), mmu-miR-96-5p(1), mmu-miR-34b-5p(1), mmu-miR-384-3p(1), mmu-miR-697(1), mmu-miR-1904(1), mmu-miR-574-5p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGGATTGGATTAGGCATCTGTCATCA
siRNA sets
AGATGCCTAATCCAATCCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLASP1_1028_ORF_1
0.5676
0.108077715
0.977759834
1050
ORF sequence:
ATGCCAACTATCTTTAATTTAATCCCGAACAGTGCCAAAATTATGGCTACTTCTGGTGTTGTAGCTGTTAGGCTAATCATTCGGCACACTCACATCCCTCGGCTGATCCCTGTCATAACCAGCAACTGTACCTCTAAGTCTGTCGCCGTCAGAAGGCGCTGTTTTGAATTTTTAGATTTGCTTTTACAAGAATGGCAGACACATTCACTAGAAAGACATATATCAGTATTAGCTGAAACAATAAAGAAAGGAATACACGACGCTGATTCTGAAGCGAGAATAGAAGCCAGGAAGTGCTACTGGGGTTTCCACAGTCACTTCAGCCGAGAAGCAGAACACCTGTACCACACTTTGGAGTCCTCGTATCAGAAGGCCCTACAGTCCCACTTGAAGAACTCGGACAGCATCGTGTCTCTGCCCCAGTCAGACCGATCCTCTTCCAGCTCTCAAGAGAGTCTCAACCGGCCACTTTCAGCCAAAAGAAGTCCCACTGGCAGCACTGCATCCAGAGGCTCTACAGTTAGTACCAAATCTGTGTCGACGACAGGATCTCTCCAGCGATCTCGAAGTGATATTGATGTGAACGCAGCAGCCAGTGCCAAATCCAAAGTCTCCTCATCCTCAGGATCCCCCGCCTTCAGCTCTGCAGCAGCACTGCCCCCAGGATCCTATGCGTCCCTAGGTCGGATCCGCACGAGACGGCAGAGCTCGGGGAGCACCACCAATGTCGCCTCCACACCCTCCGACAGTCGGGGCCGCAGTCGCGCCAAAGTGGTTTCACAGTCTCAGCGATCCAGATCTGCTAACCCTGCTGGTGCTGGCAGCCGGTCAAGTTCCCCTGGGAAGCTTTTGGGAAGTGGACTTGCTGGGGGTTCCTCCAGAGGCCCACCGGTAACACCATCCTCAGAAAAACGGAGCAAGATCCCCAGGAGTCAGGGATGTAGCCGAGAAACAAGTCCTAACCGGATTGGATTAGGCATCTGTCATCAGTTCTGGGAAATAAGTTTGATCATGGAGCTGAAGCCATTATGCCAACTATCTTTAATTTAA
Peptide sequence:
MPTIFNLIPNSAKIMATSGVVAVRLIIRHTHIPRLIPVITSNCTSKSVAVRRRCFEFLDLLLQEWQTHSLERHISVLAETIKKGIHDADSEARIEARKCYWGFHSHFSREAEHLYHTLESSYQKALQSHLKNSDSIVSLPQSDRSSSSSQESLNRPLSAKRSPTGSTASRGSTVSTKSVSTTGSLQRSRSDIDVNAAASAKSKVSSSSGSPAFSSAAALPPGSYASLGRIRTRRQSSGSTTNVASTPSDSRGRSRAKVVSQSQRSRSANPAGAGSRSSSPGKLLGSGLAGGSSRGPPVTPSSEKRSKIPRSQGCSRETSPNRIGLGICHQFWEISLIMELKPLCQLSLI
IRESfinder result
IRESfinder score
0.548402648
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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