top of page
mmu_circPign_1500
Basic information of circular RNA
PanCircBase ID:
mmu_circPign_1500
mm39_Chr. Position ID:
chr1|105474388|105526852|-
Gene name:
Pign
Transcript:
ENSMUST00000070699.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
28,27,26,25,24,23,22,21,20,19,18,17,16,15,14,13
Exon/intron offsets:
0,2401,5708,7400,7780,10799,11324,19484,33258,38325,41316,42385,42562,44958,51004,52385
Genomic length:
52464
Exon/intron sizes in nt:
53,43,74,76,56,87,103,103,109,109,92,93,100,140,183,79
Flanking exon/introns:
chr1:105449852-105474388|chr1:105526852-105565234
Splice length:
1500
Other database IDs:
circAtlas: mmu-Pign_0010
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_162908
Human Ortholog IDs:
Mature spliced Sequence:
GTTGCTTTCTGATTCTCAACAACTGGACATTTTAAGAAAAGCAAGATCTTACATAAAACAAGAAAAATTTGATGAAGTAGTGTCCCTCTGTGAGGAGCTGATTGACCTCGCCCTGAGAGGATTGTCCTATTATCATACTTATGACAGACTGTTTCTGGGCATCAATGTTGCAGTTGGTTTTGTGGGATGGATGTCTTATACTTCTTTGTTAATCATCAAGTCGCATTCTAATATCCCAAAAGGCACTAGGAAGGAAGGTAAGAAGCCACACTGTCTCCTGCTTTATAGCTTCATAGCTACTGGTGTCTTAGTAGCATGCTTCCTGATGATCCAAGCCTGTCCCTGGACTTACTATGTGTACTGCTTGCTGCCAGTGCCTATATGGTATGCAGTTCTAAGAGAACATGAAGTTATTCAAGACCTGGTTGAATCACTATTGACTTTTCCTCGGAGCCATTTTGTTGCCTACTTGCTTGTCTTTACCTTGGGTATTGAAGTACTGGTGCTCAGTTTCTTCTACCGCTACATGTTGACAGCGGGACTGATTGTGTTTGCAGGCTGGCCGTTTCTCACTCAGCTGTGGACCCGAGCAAAGATCACCTTCCTGAGTTGGGCTTTCTTCTCTTTGCTTCTGGCAGTGTTCCCACTGATGCCTGTCGTGGGTAGAAAGCCAAACCTTTCTCTAGTAATGGGTGCTGGATTCCTGGTTCTTCTGCTGTCGCTGGCTGTTGTAACAACTCTCGGAAAAAGAAACATTAAATTGGTAAAGGGCGAGCTGTTGGTACTTCTGTTACAGATGCTGAGTACAGTGCTCTCTATGTATGTGGTGTATAGCACCCACCACAGTCTGTTAAAGAAAGAAGGCCTGCCTCTTATGAATCAGATTGTGAGCTGGGCAACATTAGCCTCTTCTCTGGTGGCACCACTCCTGAGCTCCACAGCTCTCTCTCAGCGACTGGCCAGCATACTCCTCTCCTTGATGTCCACCTACCTGCTCCTAAGCACTGGGTATGAAGCTCTCTTTCCTTTAGTGCTGTCCTGTTTGATGTTTGTCTGGATCCAAGTGGAACAAGAGACCCTTCAACAGCCTGGTGTTTCTTGTAAACAGAAGCTCACCAGCATCCAGTTCACCTGTGACACTGATATAGCTCAGTTCCGACAGCTCTGTCCGGATGACATCCGTAGGGCCTTTTTCCTAGTTTTCTTTTTATTAACTGCATTTTTTGGAACTGGAAATATAGCTTCTATTAACAGCTTCGACCTTGCCTCTGTGTATTGCTTTCTGACTGTGTTTAGTCCTTTCATGATGGGAGCGCTCATGATGTGGAAGATTTTAATTCCTTTTGTTCTTGTGATGTGTGCTTTTGAAGCAGTTCAGATAACTACACAGCTGTCCTCAAAAGGTCTTTTTCTTGTTGTTCTCATCATATCAGACATCATGGCTTTGCATTTTTTCTTCCTGGTCAAGGATTCTGGCAGCTGGCTTGATATTGGAACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGACATCATGGCTTTGCA
57.8
CCTCACAGAGGGACACTACT
57.78
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGACATCATGGCTTTGCA
57.8
CCTCACAGAGGGACACTACTTC
59.51
166
PCR template sequence:
AAGGTCTTTTTCTTGTTGTTCTCATCATATCAGACATCATGGCTTTGCATTTTTTCTTCCTGGTCAAGGATTCTGGCAGCTGGCTTGATATTGGAACAAGGTTGCTTTCTGATTCTCAACAACTGGACATTTTAAGAAAAGCAAGATCTTACATAAAACAAGAAAAATTTGATGAAGTAGTGTCCCTCTGTGAGGAGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-200c-3p(1), mmu-miR-29b-3p(1), mmu-miR-335-5p(1), mmu-miR-146a-5p(1), mmu-miR-132-3p(1), mmu-miR-22-3p(1), mmu-miR-127-5p(1), mmu-miR-340-5p(1), mmu-miR-466d-3p(1), mmu-miR-300-3p(1), mmu-miR-3065-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATATTGGAACAAGGTTGCTTTCTGAT
siRNA sets
ATCAGAAAGCAACCTTGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIGN_1500_ORF_1
0.8957
0.003401975
0.99999994
2808
ORF sequence:
ATGTCTTATACTTCTTTGTTAATCATCAAGTCGCATTCTAATATCCCAAAAGGCACTAGGAAGGAAGGTAAGAAGCCACACTGTCTCCTGCTTTATAGCTTCATAGCTACTGGTGTCTTAGTAGCATGCTTCCTGATGATCCAAGCCTGTCCCTGGACTTACTATGTGTACTGCTTGCTGCCAGTGCCTATATGGTATGCAGTTCTAAGAGAACATGAAGTTATTCAAGACCTGGTTGAATCACTATTGACTTTTCCTCGGAGCCATTTTGTTGCCTACTTGCTTGTCTTTACCTTGGGTATTGAAGTACTGGTGCTCAGTTTCTTCTACCGCTACATGTTGACAGCGGGACTGATTGTGTTTGCAGGCTGGCCGTTTCTCACTCAGCTGTGGACCCGAGCAAAGATCACCTTCCTGAGTTGGGCTTTCTTCTCTTTGCTTCTGGCAGTGTTCCCACTGATGCCTGTCGTGGGTAGAAAGCCAAACCTTTCTCTAGTAATGGGTGCTGGATTCCTGGTTCTTCTGCTGTCGCTGGCTGTTGTAACAACTCTCGGAAAAAGAAACATTAAATTGGTAAAGGGCGAGCTGTTGGTACTTCTGTTACAGATGCTGAGTACAGTGCTCTCTATGTATGTGGTGTATAGCACCCACCACAGTCTGTTAAAGAAAGAAGGCCTGCCTCTTATGAATCAGATTGTGAGCTGGGCAACATTAGCCTCTTCTCTGGTGGCACCACTCCTGAGCTCCACAGCTCTCTCTCAGCGACTGGCCAGCATACTCCTCTCCTTGATGTCCACCTACCTGCTCCTAAGCACTGGGTATGAAGCTCTCTTTCCTTTAGTGCTGTCCTGTTTGATGTTTGTCTGGATCCAAGTGGAACAAGAGACCCTTCAACAGCCTGGTGTTTCTTGTAAACAGAAGCTCACCAGCATCCAGTTCACCTGTGACACTGATATAGCTCAGTTCCGACAGCTCTGTCCGGATGACATCCGTAGGGCCTTTTTCCTAGTTTTCTTTTTATTAACTGCATTTTTTGGAACTGGAAATATAGCTTCTATTAACAGCTTCGACCTTGCCTCTGTGTATTGCTTTCTGACTGTGTTTAGTCCTTTCATGATGGGAGCGCTCATGATGTGGAAGATTTTAATTCCTTTTGTTCTTGTGATGTGTGCTTTTGAAGCAGTTCAGATAACTACACAGCTGTCCTCAAAAGGTCTTTTTCTTGTTGTTCTCATCATATCAGACATCATGGCTTTGCATTTTTTCTTCCTGGTCAAGGATTCTGGCAGCTGGCTTGATATTGGAACAAGGTTGCTTTCTGATTCTCAACAACTGGACATTTTAAGAAAAGCAAGATCTTACATAAAACAAGAAAAATTTGATGAAGTAGTGTCCCTCTGTGAGGAGCTGATTGACCTCGCCCTGAGAGGATTGTCCTATTATCATACTTATGACAGACTGTTTCTGGGCATCAATGTTGCAGTTGGTTTTGTGGGATGGATGTCTTATACTTCTTTGTTAATCATCAAGTCGCATTCTAATATCCCAAAAGGCACTAGGAAGGAAGGTAAGAAGCCACACTGTCTCCTGCTTTATAGCTTCATAGCTACTGGTGTCTTAGTAGCATGCTTCCTGATGATCCAAGCCTGTCCCTGGACTTACTATGTGTACTGCTTGCTGCCAGTGCCTATATGGTATGCAGTTCTAAGAGAACATGAAGTTATTCAAGACCTGGTTGAATCACTATTGACTTTTCCTCGGAGCCATTTTGTTGCCTACTTGCTTGTCTTTACCTTGGGTATTGAAGTACTGGTGCTCAGTTTCTTCTACCGCTACATGTTGACAGCGGGACTGATTGTGTTTGCAGGCTGGCCGTTTCTCACTCAGCTGTGGACCCGAGCAAAGATCACCTTCCTGAGTTGGGCTTTCTTCTCTTTGCTTCTGGCAGTGTTCCCACTGATGCCTGTCGTGGGTAGAAAGCCAAACCTTTCTCTAGTAATGGGTGCTGGATTCCTGGTTCTTCTGCTGTCGCTGGCTGTTGTAACAACTCTCGGAAAAAGAAACATTAAATTGGTAAAGGGCGAGCTGTTGGTACTTCTGTTACAGATGCTGAGTACAGTGCTCTCTATGTATGTGGTGTATAGCACCCACCACAGTCTGTTAAAGAAAGAAGGCCTGCCTCTTATGAATCAGATTGTGAGCTGGGCAACATTAGCCTCTTCTCTGGTGGCACCACTCCTGAGCTCCACAGCTCTCTCTCAGCGACTGGCCAGCATACTCCTCTCCTTGATGTCCACCTACCTGCTCCTAAGCACTGGGTATGAAGCTCTCTTTCCTTTAGTGCTGTCCTGTTTGATGTTTGTCTGGATCCAAGTGGAACAAGAGACCCTTCAACAGCCTGGTGTTTCTTGTAAACAGAAGCTCACCAGCATCCAGTTCACCTGTGACACTGATATAGCTCAGTTCCGACAGCTCTGTCCGGATGACATCCGTAGGGCCTTTTTCCTAGTTTTCTTTTTATTAACTGCATTTTTTGGAACTGGAAATATAGCTTCTATTAACAGCTTCGACCTTGCCTCTGTGTATTGCTTTCTGACTGTGTTTAGTCCTTTCATGATGGGAGCGCTCATGATGTGGAAGATTTTAATTCCTTTTGTTCTTGTGATGTGTGCTTTTGAAGCAGTTCAGATAACTACACAGCTGTCCTCAAAAGGTCTTTTTCTTGTTGTTCTCATCATATCAGACATCATGGCTTTGCATTTTTTCTTCCTGGTCAAGGATTCTGGCAGCTGGCTTGATATTGGAACA
Peptide sequence:
MSYTSLLIIKSHSNIPKGTRKEGKKPHCLLLYSFIATGVLVACFLMIQACPWTYYVYCLLPVPIWYAVLREHEVIQDLVESLLTFPRSHFVAYLLVFTLGIEVLVLSFFYRYMLTAGLIVFAGWPFLTQLWTRAKITFLSWAFFSLLLAVFPLMPVVGRKPNLSLVMGAGFLVLLLSLAVVTTLGKRNIKLVKGELLVLLLQMLSTVLSMYVVYSTHHSLLKKEGLPLMNQIVSWATLASSLVAPLLSSTALSQRLASILLSLMSTYLLLSTGYEALFPLVLSCLMFVWIQVEQETLQQPGVSCKQKLTSIQFTCDTDIAQFRQLCPDDIRRAFFLVFFLLTAFFGTGNIASINSFDLASVYCFLTVFSPFMMGALMMWKILIPFVLVMCAFEAVQITTQLSSKGLFLVVLIISDIMALHFFFLVKDSGSWLDIGTRLLSDSQQLDILRKARSYIKQEKFDEVVSLCEELIDLALRGLSYYHTYDRLFLGINVAVGFVGWMSYTSLLIIKSHSNIPKGTRKEGKKPHCLLLYSFIATGVLVACFLMIQACPWTYYVYCLLPVPIWYAVLREHEVIQDLVESLLTFPRSHFVAYLLVFTLGIEVLVLSFFYRYMLTAGLIVFAGWPFLTQLWTRAKITFLSWAFFSLLLAVFPLMPVVGRKPNLSLVMGAGFLVLLLSLAVVTTLGKRNIKLVKGELLVLLLQMLSTVLSMYVVYSTHHSLLKKEGLPLMNQIVSWATLASSLVAPLLSSTALSQRLASILLSLMSTYLLLSTGYEALFPLVLSCLMFVWIQVEQETLQQPGVSCKQKLTSIQFTCDTDIAQFRQLCPDDIRRAFFLVFFLLTAFFGTGNIASINSFDLASVYCFLTVFSPFMMGALMMWKILIPFVLVMCAFEAVQITTQLSSKGLFLVVLIISDIMALHFFFLVKDSGSWLDIGT
IRESfinder result
IRESfinder score
0.817495159
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page