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mmu_circClasp1_1494
Basic information of circular RNA
PanCircBase ID:
mmu_circClasp1_1494
mm39_Chr. Position ID:
chr1|118425363|118453185|+
Gene name:
Clasp1
Transcript:
ENSMUST00000049404.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
9,10,11,12,13,14,15,16,17,18,19,20,21,22
Exon/intron offsets:
0,2014,3668,5219,6186,7262,7848,9306,11181,11938,12572,24193,25687,27663
Genomic length:
27822
Exon/intron sizes in nt:
15,37,49,31,46,13,67,10,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:118399569-118425363|chr1:118453185-118459707
Splice length:
1494
Other database IDs:
circBase: mmu_circ_0008089, CIRCpedia: MMU_CIRCpedia_4503, circAtlas: mmu-Clasp1_0015
circBase: hsa_circ_0117222, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_37725
Human Ortholog IDs:
Mature spliced Sequence:
AAAAAAATTTTGATGATGAAGATTCTGTGGATGGCAACAGGCCTTCTTCTGCCAGCTCCTCATCATCCAAGGCCCCATCAAGTTCCCGGAGGAATGTTAACCTGGGGACCACCCGTAGGCTCATGTCATCCAGTCTTGGATCTAAGTCTTCAGCTGCAAAAGAAGGCGCTGGTGCTGTGGATGAAGAGGATTTTATTAAAGCCTTTGATGATGTACCTGTAGTGCAGATTTACTCCAGCCGAGACCTCGAGGAATCCATAAACAAAATCAGAGAAATCCTGTCAGATGACAAGCATGACTGGGAGCAGAGAGTAAATGCTCTAAAAAAGATTAGATCGTTACTCTTGGCTGGGGCTGCTGAGTACGATAACTTCTTTCAACACTTGCGTCTTCTGGACGGGGCCTTTAAACTCTCTGCTAAGGACCTGCGGTCTCAGGTAGTGCGGGAAGCTTGTATCACATTGGGGCATCTGTCATCAGTTCTGGGAAATAAGTTTGATCATGGAGCTGAAGCCATTATGCCAACTATCTTTAATTTAATCCCGAACAGTGCCAAAATTATGGCTACTTCTGGTGTTGTAGCTGTTAGGCTAATCATTCGGCACACTCACATCCCTCGGCTGATCCCTGTCATAACCAGCAACTGTACCTCTAAGTCTGTCGCCGTCAGAAGGCGCTGTTTTGAATTTTTAGATTTGCTTTTACAAGAATGGCAGACACATTCACTAGAAAGACATATATCAGTATTAGCTGAAACAATAAAGAAAGGAATACACGACGCTGATTCTGAAGCGAGAATAGAAGCCAGGAAGTGCTACTGGGGTTTCCACAGTCACTTCAGCCGAGAAGCAGAACACCTGTACCACACTTTGGAGTCCTCGTATCAGAAGGCCCTACAGTCCCACTTGAAGAACTCGGACAGCATCGTGTCTCTGCCCCAGTCAGACCGATCCTCTTCCAGCTCTCAAGAGAGTCTCAACCGGCCACTTTCAGCCAAAAGAAGTCCCACTGGCAGCACTGCATCCAGAGGCTCTACAGTTAGTACCAAATCTGTGTCGACGACAGGATCTCTCCAGCGATCTCGAAGTGATATTGATGTGAACGCAGCAGCCAGTGCCAAATCCAAAGTCTCCTCATCCTCAGGATCCCCCGCCTTCAGCTCTGCAGCAGCACTGCCCCCAGGATCCTATGCGTCCCTAGGTCGGATCCGCACGAGACGGCAGAGCTCGGGGAGCACCACCAATGTCGCCTCCACACCCTCCGACAGTCGGGGCCGCAGTCGCGCCAAAGTGGTTTCACAGTCTCAGCGATCCAGATCTGCTAACCCTGCTGGTGCTGGCAGCCGGTCAAGTTCCCCTGGGAAGCTTTTGGGAAGTGGACTTGCTGGGGGTTCCTCCAGAGGCCCACCGGTAACACCATCCTCAGAAAAACGGAGCAAGATCCCCAGGAGTCAGGGATGTAGCCGAGAAACAAGTCCTAACCGGATTGGATTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAACGGAGCAAGATCCCCAG
60.04
ACTTGATGGGGCCTTGGATG
60.03
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAACGGAGCAAGATCCCCAG
60.04
GAACTTGATGGGGCCTTGGA
59.96
152
PCR template sequence:
TCCAGAGGCCCACCGGTAACACCATCCTCAGAAAAACGGAGCAAGATCCCCAGGAGTCAGGGATGTAGCCGAGAAACAAGTCCTAACCGGATTGGATTAGAAAAAAATTTTGATGATGAAGATTCTGTGGATGGCAACAGGCCTTCTTCTGCCAGCTCCTCATCATCCAAGGCCCCATCAAGTTCCCGGAGGAATGTTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-221-3p(1), mmu-miR-34c-5p(1), mmu-miR-298-5p(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
CGGATTGGATTAGAAAAAAATTTTGA
siRNA sets
TTTTTTTCTAATCCAATCC, CAAAATTTTTTTCTAATCC, ATTTTTTTCTAATCCAATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLASP1_1494_ORF_1
0.7067
0.161635518
0.99999997
2865
ORF sequence:
ATGTCATCCAGTCTTGGATCTAAGTCTTCAGCTGCAAAAGAAGGCGCTGGTGCTGTGGATGAAGAGGATTTTATTAAAGCCTTTGATGATGTACCTGTAGTGCAGATTTACTCCAGCCGAGACCTCGAGGAATCCATAAACAAAATCAGAGAAATCCTGTCAGATGACAAGCATGACTGGGAGCAGAGAGTAAATGCTCTAAAAAAGATTAGATCGTTACTCTTGGCTGGGGCTGCTGAGTACGATAACTTCTTTCAACACTTGCGTCTTCTGGACGGGGCCTTTAAACTCTCTGCTAAGGACCTGCGGTCTCAGGTAGTGCGGGAAGCTTGTATCACATTGGGGCATCTGTCATCAGTTCTGGGAAATAAGTTTGATCATGGAGCTGAAGCCATTATGCCAACTATCTTTAATTTAATCCCGAACAGTGCCAAAATTATGGCTACTTCTGGTGTTGTAGCTGTTAGGCTAATCATTCGGCACACTCACATCCCTCGGCTGATCCCTGTCATAACCAGCAACTGTACCTCTAAGTCTGTCGCCGTCAGAAGGCGCTGTTTTGAATTTTTAGATTTGCTTTTACAAGAATGGCAGACACATTCACTAGAAAGACATATATCAGTATTAGCTGAAACAATAAAGAAAGGAATACACGACGCTGATTCTGAAGCGAGAATAGAAGCCAGGAAGTGCTACTGGGGTTTCCACAGTCACTTCAGCCGAGAAGCAGAACACCTGTACCACACTTTGGAGTCCTCGTATCAGAAGGCCCTACAGTCCCACTTGAAGAACTCGGACAGCATCGTGTCTCTGCCCCAGTCAGACCGATCCTCTTCCAGCTCTCAAGAGAGTCTCAACCGGCCACTTTCAGCCAAAAGAAGTCCCACTGGCAGCACTGCATCCAGAGGCTCTACAGTTAGTACCAAATCTGTGTCGACGACAGGATCTCTCCAGCGATCTCGAAGTGATATTGATGTGAACGCAGCAGCCAGTGCCAAATCCAAAGTCTCCTCATCCTCAGGATCCCCCGCCTTCAGCTCTGCAGCAGCACTGCCCCCAGGATCCTATGCGTCCCTAGGTCGGATCCGCACGAGACGGCAGAGCTCGGGGAGCACCACCAATGTCGCCTCCACACCCTCCGACAGTCGGGGCCGCAGTCGCGCCAAAGTGGTTTCACAGTCTCAGCGATCCAGATCTGCTAACCCTGCTGGTGCTGGCAGCCGGTCAAGTTCCCCTGGGAAGCTTTTGGGAAGTGGACTTGCTGGGGGTTCCTCCAGAGGCCCACCGGTAACACCATCCTCAGAAAAACGGAGCAAGATCCCCAGGAGTCAGGGATGTAGCCGAGAAACAAGTCCTAACCGGATTGGATTAGAAAAAAATTTTGATGATGAAGATTCTGTGGATGGCAACAGGCCTTCTTCTGCCAGCTCCTCATCATCCAAGGCCCCATCAAGTTCCCGGAGGAATGTTAACCTGGGGACCACCCGTAGGCTCATGTCATCCAGTCTTGGATCTAAGTCTTCAGCTGCAAAAGAAGGCGCTGGTGCTGTGGATGAAGAGGATTTTATTAAAGCCTTTGATGATGTACCTGTAGTGCAGATTTACTCCAGCCGAGACCTCGAGGAATCCATAAACAAAATCAGAGAAATCCTGTCAGATGACAAGCATGACTGGGAGCAGAGAGTAAATGCTCTAAAAAAGATTAGATCGTTACTCTTGGCTGGGGCTGCTGAGTACGATAACTTCTTTCAACACTTGCGTCTTCTGGACGGGGCCTTTAAACTCTCTGCTAAGGACCTGCGGTCTCAGGTAGTGCGGGAAGCTTGTATCACATTGGGGCATCTGTCATCAGTTCTGGGAAATAAGTTTGATCATGGAGCTGAAGCCATTATGCCAACTATCTTTAATTTAATCCCGAACAGTGCCAAAATTATGGCTACTTCTGGTGTTGTAGCTGTTAGGCTAATCATTCGGCACACTCACATCCCTCGGCTGATCCCTGTCATAACCAGCAACTGTACCTCTAAGTCTGTCGCCGTCAGAAGGCGCTGTTTTGAATTTTTAGATTTGCTTTTACAAGAATGGCAGACACATTCACTAGAAAGACATATATCAGTATTAGCTGAAACAATAAAGAAAGGAATACACGACGCTGATTCTGAAGCGAGAATAGAAGCCAGGAAGTGCTACTGGGGTTTCCACAGTCACTTCAGCCGAGAAGCAGAACACCTGTACCACACTTTGGAGTCCTCGTATCAGAAGGCCCTACAGTCCCACTTGAAGAACTCGGACAGCATCGTGTCTCTGCCCCAGTCAGACCGATCCTCTTCCAGCTCTCAAGAGAGTCTCAACCGGCCACTTTCAGCCAAAAGAAGTCCCACTGGCAGCACTGCATCCAGAGGCTCTACAGTTAGTACCAAATCTGTGTCGACGACAGGATCTCTCCAGCGATCTCGAAGTGATATTGATGTGAACGCAGCAGCCAGTGCCAAATCCAAAGTCTCCTCATCCTCAGGATCCCCCGCCTTCAGCTCTGCAGCAGCACTGCCCCCAGGATCCTATGCGTCCCTAGGTCGGATCCGCACGAGACGGCAGAGCTCGGGGAGCACCACCAATGTCGCCTCCACACCCTCCGACAGTCGGGGCCGCAGTCGCGCCAAAGTGGTTTCACAGTCTCAGCGATCCAGATCTGCTAACCCTGCTGGTGCTGGCAGCCGGTCAAGTTCCCCTGGGAAGCTTTTGGGAAGTGGACTTGCTGGGGGTTCCTCCAGAGGCCCACCGGTAACACCATCCTCAGAAAAACGGAGCAAGATCCCCAGGAGTCAGGGATGTAGCCGAGAAACAAGTCCTAACCGGATTGGATTA
Peptide sequence:
MSSSLGSKSSAAKEGAGAVDEEDFIKAFDDVPVVQIYSSRDLEESINKIREILSDDKHDWEQRVNALKKIRSLLLAGAAEYDNFFQHLRLLDGAFKLSAKDLRSQVVREACITLGHLSSVLGNKFDHGAEAIMPTIFNLIPNSAKIMATSGVVAVRLIIRHTHIPRLIPVITSNCTSKSVAVRRRCFEFLDLLLQEWQTHSLERHISVLAETIKKGIHDADSEARIEARKCYWGFHSHFSREAEHLYHTLESSYQKALQSHLKNSDSIVSLPQSDRSSSSSQESLNRPLSAKRSPTGSTASRGSTVSTKSVSTTGSLQRSRSDIDVNAAASAKSKVSSSSGSPAFSSAAALPPGSYASLGRIRTRRQSSGSTTNVASTPSDSRGRSRAKVVSQSQRSRSANPAGAGSRSSSPGKLLGSGLAGGSSRGPPVTPSSEKRSKIPRSQGCSRETSPNRIGLEKNFDDEDSVDGNRPSSASSSSSKAPSSSRRNVNLGTTRRLMSSSLGSKSSAAKEGAGAVDEEDFIKAFDDVPVVQIYSSRDLEESINKIREILSDDKHDWEQRVNALKKIRSLLLAGAAEYDNFFQHLRLLDGAFKLSAKDLRSQVVREACITLGHLSSVLGNKFDHGAEAIMPTIFNLIPNSAKIMATSGVVAVRLIIRHTHIPRLIPVITSNCTSKSVAVRRRCFEFLDLLLQEWQTHSLERHISVLAETIKKGIHDADSEARIEARKCYWGFHSHFSREAEHLYHTLESSYQKALQSHLKNSDSIVSLPQSDRSSSSSQESLNRPLSAKRSPTGSTASRGSTVSTKSVSTTGSLQRSRSDIDVNAAASAKSKVSSSSGSPAFSSAAALPPGSYASLGRIRTRRQSSGSTTNVASTPSDSRGRSRAKVVSQSQRSRSANPAGAGSRSSSPGKLLGSGLAGGSSRGPPVTPSSEKRSKIPRSQGCSRETSPNRIGL
IRESfinder result
IRESfinder score
0.523783765
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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