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mmu_circHk1_1344
Basic information of circular RNA
PanCircBase ID:
mmu_circHk1_1344
mm39_Chr. Position ID:
chr10|62110225|62126172|-
Gene name:
Hk1
Transcript:
ENSMUST00000099691.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
16,15,14,13,12,11,10,9
Exon/intron offsets:
0,1234,6586,7364,9832,10254,11901,15713
Genomic length:
15947
Exon/intron sizes in nt:
15,61,84,10,09,61,20,10,00,00,000
Flanking exon/introns:
chr10:62107601-62110225|chr10:62126172-62128092
Splice length:
1344
Other database IDs:
circAtlas: mmu-Hk1_0011
Human Ortholog IDs:
Mature spliced Sequence:
GGATAAGGAAGGCGTTCAAAATGCCAAGGAAATCTTGACCCGCCTGGGAGTGGAGCCGTCTCACGATGACTGCGTATCGGTCCAGCACGTATGCACGATCGTCTCCTTCCGATCAGCCAACCTGGTGGCTGCCACGCTCGGTGCCATCTTGAACCGCCTGCGGGACAATAAGGGCACGCCCAGGCTGCGGACCACAGTTGGCGTAGACGGTTCTCTCTACAAGATGCACCCACAGTATTCCCGGCGGTTCCACAAGACCCTGAGGCGCCTGGTGCCTGACTCGGACGTCCGGTTCCTCCTCTCGGAGAGTGGCAGTGGCAAGGGAGCCGCCATGGTGACCGCTGTGGCCTACCGCCTGGCCGAGCAGCACCGGCAGATTGAGGAAACCCTGTCCCACTTCCGCCTCAGCAAGCAGGCACTGATGGAGGTGAAGAAGAAGCTGCGGTCAGAGATGGAAATGGGGCTGAGAAAGGAGACCAACAGCAGAGCTACGGTCAAAATGCTGCCTTCTTATGTTCGGAGCATCCCAGATGGGACTGAGCATGGTGACTTCCTGGCCTTGGATCTCGGAGGAACGAATTTCCGAGTCCTACTGGTAAAGATCCGTAGTGGGAAAAAGAGAACAGTGGAGATGCACAACAAGATCTACTCCATTCCCCTGGAAATCATGCAGGGCACCGGGGATGAGCTGTTTGATCACATTGTCTCCTGCATCTCCGACTTCCTGGACTACATGGGGATCAAAGGCCCCCGGATGCCTCTGGGCTTCACCTTCTCGTTTCCCTGCAAGCAGACGAGCCTAGATTGCGGAATCTTGATCACGTGGACAAAGGGATTCAAAGCCACCGACTGTGTGGGTCACGATGTAGCCACTTTACTGAGGGATGCTGTAAAAAGGAGAGAGGAATTTGACCTGGATGTGGTGGCTGTGGTCAACGACACCGTGGGCACCATGATGACTTGTGCTTATGAAGAACCTTCTTGTGAGATTGGACTCATCGTGGGGACTGGCAGCAATGCCTGCTACATGGAGGAGATGAAAAACGTGGAGATGGTGGAGGGGAACCAGGGCCAGATGTGCATCAATATGGAATGGGGTGCCTTTGGTGACAACGGCTGTCTGGACGACATCAGAACAGACTTCGACAAAGTGGTGGACGAATATTCTCTAAACAGTGGGAAACAAAGGTTTGAGAAGATGATCAGTGGAATGTACCTGGGTGAGATCGTCCGTAACATCCTGATTGACTTCACCAAGAAAGGCTTCCTCTTCCGGGGACAGATCTCTGAGCCACTCAAGACCCGAGGCATCTTCGAGACCAAGTTTCTCTCTCAGATCGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCTCTTCCGGGGACAGAT
59.96
CCGATACGCAGTCATCGTGA
59.97
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCTCTTCCGGGGACAGAT
59.96
GACCGATACGCAGTCATCGT
59.97
162
PCR template sequence:
TTGACTTCACCAAGAAAGGCTTCCTCTTCCGGGGACAGATCTCTGAGCCACTCAAGACCCGAGGCATCTTCGAGACCAAGTTTCTCTCTCAGATCGAGAGGGATAAGGAAGGCGTTCAAAATGCCAAGGAAATCTTGACCCGCCTGGGAGTGGAGCCGTCTCACGATGACTGCGTATCGGTCCAGCACGTATGCACGATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-221-3p(1), mmu-miR-135a-5p(1), mmu-miR-200c-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-328-3p(1), mmu-miR-222-3p(1), mmu-miR-324-5p(1), mmu-miR-127-5p(1), mmu-miR-183-5p(1), mmu-miR-107-3p(1), mmu-miR-224-5p(1), mmu-miR-335-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCAGATCGAGAGGGATAAGGAAGGC
siRNA sets
TTATCCCTCTCGATCTGAG, TTCCTTATCCCTCTCGATC, CTTATCCCTCTCGATCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHK1_1344_ORF_1
1.1805
0.484429817
0.999999941
2463
ORF sequence:
ATGCACCCACAGTATTCCCGGCGGTTCCACAAGACCCTGAGGCGCCTGGTGCCTGACTCGGACGTCCGGTTCCTCCTCTCGGAGAGTGGCAGTGGCAAGGGAGCCGCCATGGTGACCGCTGTGGCCTACCGCCTGGCCGAGCAGCACCGGCAGATTGAGGAAACCCTGTCCCACTTCCGCCTCAGCAAGCAGGCACTGATGGAGGTGAAGAAGAAGCTGCGGTCAGAGATGGAAATGGGGCTGAGAAAGGAGACCAACAGCAGAGCTACGGTCAAAATGCTGCCTTCTTATGTTCGGAGCATCCCAGATGGGACTGAGCATGGTGACTTCCTGGCCTTGGATCTCGGAGGAACGAATTTCCGAGTCCTACTGGTAAAGATCCGTAGTGGGAAAAAGAGAACAGTGGAGATGCACAACAAGATCTACTCCATTCCCCTGGAAATCATGCAGGGCACCGGGGATGAGCTGTTTGATCACATTGTCTCCTGCATCTCCGACTTCCTGGACTACATGGGGATCAAAGGCCCCCGGATGCCTCTGGGCTTCACCTTCTCGTTTCCCTGCAAGCAGACGAGCCTAGATTGCGGAATCTTGATCACGTGGACAAAGGGATTCAAAGCCACCGACTGTGTGGGTCACGATGTAGCCACTTTACTGAGGGATGCTGTAAAAAGGAGAGAGGAATTTGACCTGGATGTGGTGGCTGTGGTCAACGACACCGTGGGCACCATGATGACTTGTGCTTATGAAGAACCTTCTTGTGAGATTGGACTCATCGTGGGGACTGGCAGCAATGCCTGCTACATGGAGGAGATGAAAAACGTGGAGATGGTGGAGGGGAACCAGGGCCAGATGTGCATCAATATGGAATGGGGTGCCTTTGGTGACAACGGCTGTCTGGACGACATCAGAACAGACTTCGACAAAGTGGTGGACGAATATTCTCTAAACAGTGGGAAACAAAGGTTTGAGAAGATGATCAGTGGAATGTACCTGGGTGAGATCGTCCGTAACATCCTGATTGACTTCACCAAGAAAGGCTTCCTCTTCCGGGGACAGATCTCTGAGCCACTCAAGACCCGAGGCATCTTCGAGACCAAGTTTCTCTCTCAGATCGAGAGGGATAAGGAAGGCGTTCAAAATGCCAAGGAAATCTTGACCCGCCTGGGAGTGGAGCCGTCTCACGATGACTGCGTATCGGTCCAGCACGTATGCACGATCGTCTCCTTCCGATCAGCCAACCTGGTGGCTGCCACGCTCGGTGCCATCTTGAACCGCCTGCGGGACAATAAGGGCACGCCCAGGCTGCGGACCACAGTTGGCGTAGACGGTTCTCTCTACAAGATGCACCCACAGTATTCCCGGCGGTTCCACAAGACCCTGAGGCGCCTGGTGCCTGACTCGGACGTCCGGTTCCTCCTCTCGGAGAGTGGCAGTGGCAAGGGAGCCGCCATGGTGACCGCTGTGGCCTACCGCCTGGCCGAGCAGCACCGGCAGATTGAGGAAACCCTGTCCCACTTCCGCCTCAGCAAGCAGGCACTGATGGAGGTGAAGAAGAAGCTGCGGTCAGAGATGGAAATGGGGCTGAGAAAGGAGACCAACAGCAGAGCTACGGTCAAAATGCTGCCTTCTTATGTTCGGAGCATCCCAGATGGGACTGAGCATGGTGACTTCCTGGCCTTGGATCTCGGAGGAACGAATTTCCGAGTCCTACTGGTAAAGATCCGTAGTGGGAAAAAGAGAACAGTGGAGATGCACAACAAGATCTACTCCATTCCCCTGGAAATCATGCAGGGCACCGGGGATGAGCTGTTTGATCACATTGTCTCCTGCATCTCCGACTTCCTGGACTACATGGGGATCAAAGGCCCCCGGATGCCTCTGGGCTTCACCTTCTCGTTTCCCTGCAAGCAGACGAGCCTAGATTGCGGAATCTTGATCACGTGGACAAAGGGATTCAAAGCCACCGACTGTGTGGGTCACGATGTAGCCACTTTACTGAGGGATGCTGTAAAAAGGAGAGAGGAATTTGACCTGGATGTGGTGGCTGTGGTCAACGACACCGTGGGCACCATGATGACTTGTGCTTATGAAGAACCTTCTTGTGAGATTGGACTCATCGTGGGGACTGGCAGCAATGCCTGCTACATGGAGGAGATGAAAAACGTGGAGATGGTGGAGGGGAACCAGGGCCAGATGTGCATCAATATGGAATGGGGTGCCTTTGGTGACAACGGCTGTCTGGACGACATCAGAACAGACTTCGACAAAGTGGTGGACGAATATTCTCTAAACAGTGGGAAACAAAGGTTTGAGAAGATGATCAGTGGAATGTACCTGGGTGAGATCGTCCGTAACATCCTGATTGACTTCACCAAGAAAGGCTTCCTCTTCCGGGGACAGATCTCTGAGCCACTCAAGACCCGAGGCATCTTCGAGACCAAGTTTCTCTCTCAGATCGAG
Peptide sequence:
MHPQYSRRFHKTLRRLVPDSDVRFLLSESGSGKGAAMVTAVAYRLAEQHRQIEETLSHFRLSKQALMEVKKKLRSEMEMGLRKETNSRATVKMLPSYVRSIPDGTEHGDFLALDLGGTNFRVLLVKIRSGKKRTVEMHNKIYSIPLEIMQGTGDELFDHIVSCISDFLDYMGIKGPRMPLGFTFSFPCKQTSLDCGILITWTKGFKATDCVGHDVATLLRDAVKRREEFDLDVVAVVNDTVGTMMTCAYEEPSCEIGLIVGTGSNACYMEEMKNVEMVEGNQGQMCINMEWGAFGDNGCLDDIRTDFDKVVDEYSLNSGKQRFEKMISGMYLGEIVRNILIDFTKKGFLFRGQISEPLKTRGIFETKFLSQIERDKEGVQNAKEILTRLGVEPSHDDCVSVQHVCTIVSFRSANLVAATLGAILNRLRDNKGTPRLRTTVGVDGSLYKMHPQYSRRFHKTLRRLVPDSDVRFLLSESGSGKGAAMVTAVAYRLAEQHRQIEETLSHFRLSKQALMEVKKKLRSEMEMGLRKETNSRATVKMLPSYVRSIPDGTEHGDFLALDLGGTNFRVLLVKIRSGKKRTVEMHNKIYSIPLEIMQGTGDELFDHIVSCISDFLDYMGIKGPRMPLGFTFSFPCKQTSLDCGILITWTKGFKATDCVGHDVATLLRDAVKRREEFDLDVVAVVNDTVGTMMTCAYEEPSCEIGLIVGTGSNACYMEEMKNVEMVEGNQGQMCINMEWGAFGDNGCLDDIRTDFDKVVDEYSLNSGKQRFEKMISGMYLGEIVRNILIDFTKKGFLFRGQISEPLKTRGIFETKFLSQIE
IRESfinder result
IRESfinder score
0.325248546
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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