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mmu_ciHspa12a_2924
Basic information of circular RNA
PanCircBase ID:
mmu_ciHspa12a_2924
mm39_Chr. Position ID:
chr19|58917397|58920321|-
Gene name:
Hspa12a
Transcript:
ENSMUST00000237297.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
2924
Exon/intron sizes in nt:
2924
Flanking exon/introns:
chr19:58816770-58920321
Splice length:
2924
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGACGCGAGCTCACTGTACTGTAAGTACTGGTGTATGCAGAGAGGGACCAGGCACCCTGGGAACAGGCACGCTTACGCTTGTGTACACCAGCGACATCGACTTCACAGCACAGTCAGACCCACGAAGGAAAGTGTGTGTAGAGCATGGACAGCCGTGCTCACTGGCCATAGCTTATAGAGTGGGGCCTGGCGTCTGTCGGCCCTGTTTGGCTCATGCTGTCTCCTAGCTCTGTGCTGGTGGCCCTGGAGACCCAGTCACGTTCGGTACCATATGCAGGCAAGGAGAGATGGCCTCTCTGGTGTTAGGAGCTTGTTTATGCTTTAACATAGTCTGTCTGCTCAGAGGATGGCCTTCTTACCCCTCCTTCCTCATGCCTCCCTCCAATACCAGAGAAAACAAGTGGGCTATTCATGCAAGAAGAGAAAGAGCGAAAGGGGAGGGGAGTACCACCGGCAAACCCCATTGAAAGCCACTGGCTGTTCATTTACATTCACACTTTTTAAAAATGTTAGCTAATGATGTTAACTGGTCCGCCAAAGGTCCTGGCAGGTCAGTTGTAGAAGTGTCATTTCTGCCTAATTAGAGCTCTTGTGGCTGCCCCAGGCCTTCCAGTGCCAGTGGTGACAAGCGGGAGCTGACAGCTTCATTTGCTGCAGGCAGGAAGGGTGAGCCGCTTCTGTTTTCCAACTCAGCCAGGTGTTTGCTGAATGGGGAGGGGCCTGGCCCTATCTGAGCGAGCGAGCATCCGAGATCCTTTTCTTTCACTCTGCCCTCCCAAGTCCTTCCCCTTTGCTTGTCTTGTCTTGTGTCAAGGTCAAGAATGGGCTTTGCTAAATCAGCCCTTTGGATTATCTCTGGGAGGTCGTTAGCAGCCCCAGCCCAGTTGCCAGGGTCCCAGGTCGCAGATGCTGGACGCCCCCTCCCCCCCTTTCCTTAAAAATCAGAGAGAAGGATAAGGGGTCAGGATATTCCGGATAGGAACAATAATGAATAGAAGACAAAACGAAAAACTCTCAGAAAGCTCTACATGGTCGTCTGAGTGTTAAAAATCACTACCAGTAAAATGGCTTAAAGAGAAACAGCTACAGCTCTGCAGACAACGCCATAAGTACCTGAAAAGAGGACTGTGGCCGGAGCTGTTCTTACCCTGTCCCGGGCTGGATTGCACCTCCCACATATTAGGTGTGCCTGCTTGGTTATTTCTTGGTTTGATTTTTCAAGAGCAAAAAAAAATAAAAACAAATGGCAGGCTGAGAGACAAAGAACTGAGGAGGCTAAGAAGCCACTAGTTCTTCATTGTCCCCCACCCGGTTCCAGGTGGCATGTGTTCTGACTTTCTCAGTTGCTTTTCAACTAAACTTGTCAGTTGGTAGGATAATCTTGATTTTTTTTTTTTGTCTTGTTATCATGGTAAAAGAACCTAATGTCATTGGTGCTAGGCACCCCTGACTGCAGCGACTGCTACCCAAGGAGAGGGTCCCCCAGCCCTGACAGGACATCTGGGTGTGAGCCTGACCCATATCCTCTCTAGCAGGTCATGAGTTGAACACAGAAGCACCCGAGGACATATGAACACACATGCACATATGGGGCACACTATTCAGTCTGTGTCACAACAGCAGGATAATACACGGGCACTTGGGAACAGTGCCGTATTACAGGGAGAAACGGAAAATCAATGCTTTATGAAAGGCCAAGACTAAATCCACAGGTCTGAAGAGGTAAGGGGCGTTGGAAGGATAGGGCCTGCACTCCAGAGCTCTACCCCCTTTCCTTGCCTCTCCGTTCCTAGCTGCTCTTTCTGTCTGTTCTCACATGGGACGGTGAGAATTGGGGCCTGGAAAATAGACCATCCATGCCTGGTGTTTGGTTACAGAGGTTAAACAGGATGCCGCACATTAGCACATCTGTGCCACCTTGCCACATACCAGGTGCCCAGTACCAGTGGCTGAACTCTGCCTTCCCAAGTGGTCCATGGCTGCAGAATATGTGTAATTCTCAGCCTCTAGTCAGTGAACCTACTAAGTGGAGATGGAGACTGGCCACTCTGAGCTGTGCTTCTTCAGAGCCTGTCATAGAAGGTCCTTGGGGCATCCTGGAACAAGAAAACTGACAGGATTGGCTCTGCTCAGGAAGGAAACATGGAGAAACCTGGGCTTATTCAAGCAGTTTCCTTTGTTTACCCTGCCCAGGGTTGCCAGTGAAGGGGCTCCTCCATCACTAACTAAAGGTCTTATCCTATGCTGGTTCCTCTCCACCCCACCATGCCACAGTGTATTTCTTTCTCTTCCTCGTAGGTGATCTTTTCCCCGGGCTTCTCATTGTTCTGGGGACTGTTGTTTATTTTCTAGTGCCTTTTCCAGGTGTGTGTGACTTGAACTCCTAAGAACAATTCTAAGCCCTTTCTGGGCTCTGCCTCCTACACCCACCTCCATCTTAGAATCTTGGCTCTTGAAGCCACTACTGCAGTCAGCCTCCTCTGAGGGAGAGAGATTGTTGTGTGGCTCTTGTAAGTGTGAAAAAAACAGCCACTTAAGAGCCTTCTTGTGGATATGAAGACAGGTATTTAAAAATCATGGGGAAAGGATTAGTGGTAGAGAAAACCTTCTATAGCATCCAAGTAAAAATGGAAAAAATAAGCTATTTAGTTACAAAAACTAAAACAAACAAGACACTTGTAAAGATCACAGAGCAAGGATCACGTGGCTGACAGCAGTGGAGTTTGCAGTAACTGGCCACCACAGCGGGGACTCTGGGAAGGTGAAATCATGCTCAGTTAATTTTATTCTCTGAAAGGCAGACCTGACTTGTGTTATTACATTGCTCAGCCCTTGAGCATTTCTTTGAGCAACATTCAGTGTTATATTATGTAAGCTTGACACCAAGAAGAAGGTACTATTGTAGATATTCAATTTAATAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGCCCTTGAGCATTTCT
57.87
GGTCCCTCTCTGCATACACC
59.53
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGCCCTTGAGCATTTCT
57.87
CCTGGTCCCTCTCTGCATAC
59.24
152
PCR template sequence:
TTGCTCAGCCCTTGAGCATTTCTTTGAGCAACATTCAGTGTTATATTATGTAAGCTTGACACCAAGAAGAAGGTACTATTGTAGATATTCAATTTAATAAGTAGGACGCGAGCTCACTGTACTGTAAGTACTGGTGTATGCAGAGAGGGACCAGGCACCCTGGGAACAGGCACGCTTACGCTTGTGTACACCAGCGACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
29
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(2), mmu-miR-134-5p(1), mmu-miR-141-3p(1), mmu-miR-135a-5p(1), mmu-miR-101a-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-101b-3p(1), mmu-miR-132-3p(1), mmu-miR-709(1), mmu-miR-212-3p(1), mmu-miR-370-3p(1), mmu-miR-297a-5p(1), mmu-miR-342-5p(1), mmu-miR-705(1), mmu-miR-27a-5p(1), mmu-miR-680(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-484(1), mmu-miR-452-3p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCAATTTAATAAGTAGGACGCGAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.713577262
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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