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mmu_circFam193a_1074
Basic information of circular RNA
PanCircBase ID:
mmu_circFam193a_1074
mm39_Chr. Position ID:
chr5|34567924|34593942|+
Gene name:
Fam193a
Transcript:
ENSMUST00000180376.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,9420,10203,15686,20551,25870
Genomic length:
26018
Exon/intron sizes in nt:
2,43,15,51,68,23,51,25,000
Flanking exon/introns:
chr5:34527771-34567924|chr5:34593942-34596654
Splice length:
1074
Other database IDs:
circAtlas: mmu-Fam193a_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_341845
Human Ortholog IDs:
Mature spliced Sequence:
ACTCCTTTTAGTTTTGGCATGAATCATAGGACACCACCCTACCCCGCTGGGGATTATTGTCTTCTATGCAGAAGTGAACGAAAAGACTCTTCATTCTTAGAGAGTGGAGTTAAGACTGCGAGCAAATTGGCCCTTTCCATGGCTCCCAAGGGCAACAGCGTGCTGCACCTGCCGCTGTGGGTATGCCCAGACTGCCGGAGGACTGTGGAGAAGGAAGAGAGGCACAGCGGTCTTGACCAGCCGGGCCAAGATTTTCTCCTTCACTCATCTCTTGGGGGTTCCCAGCCTGAGACCAGTGGTGCTGGGAGGCTGGCCCTAGGCACACAGACCATGACCTCATCAGGGCTAGGCACCACGCCCTCAGATGCCTGTTCATGTGAGGCCTGCAGTGAACGCAGAGACATCTCAGCAGAGACAGAACGGGAACCACAACAACTGCAGAACTATTGGTCAGAAGTACGCTACATGGTCCGATGCATATACCGCCAGGCAGGGACCCCGCTGGCAGAAGATCAGGACCAGTCTCTGGTTCCCGACAAAGAGGGCGTGAAGGAGCTCGTGGATAGGCTCTGTGAGCGGGACCCCTATCAGCTCTACCAGCGGTTGGAGCAACAAGCCCGGGAATATGTGCTGGAGATGAAGGTCCGCCTGCTTCGGCAGCTCTCTGCTGCAGCCAAGGCCAAGGCACCGTCTGGCTTGCAGGGCCCACCTCAGGCACACCACTTTGTCTCCCTACTCCTGGAGGAGTATGCTGCCCTTTGCCAGGCAGCACGATCCATCAGTACCTTTCTTGGCACTCTGGAAAATGAACATTTGAAAAAGTTCCAGGTGACATGGGAACTGCATAACAAACATCTATTTGAAAATCTGGTCTTTTCAGAGCCACTTCTCCAGAGCAACTTGCCAGCACTGGTGTCTCAGATCAGGCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCAGAGGTACCAGCGTTC
60.74
GGGGTAGGGTGGTGTCCTAT
60.03
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGAGGTACCAGCGTTCT
61.19
GGGGTAGGGTGGTGTCCTAT
60.03
140
PCR template sequence:
CTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAGACTCCTTTTAGTTTTGGCATGAATCATAGGACACCACCCTACCCCGCTGGGGATTATTGTCTTCTATGCAGAAGTGAACGAAAAGACTCTTCATTCTTAG
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-103-3p(1), mmu-miR-205-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-351-5p(1), mmu-miR-153-3p(1), mmu-miR-382-5p(1), mmu-miR-107-3p(1), mmu-miR-680(1), mmu-miR-207(1), mmu-miR-3061-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGGATGAGCAGACTCCTTTTAGTT
siRNA sets
AACTAAAAGGAGTCTGCTC, TAAAAGGAGTCTGCTCATC, ACTAAAAGGAGTCTGCTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM193A_1074_ORF_1
0.8829
0.290871969
0.999997523
2130
ORF sequence:
ATGAATCATAGGACACCACCCTACCCCGCTGGGGATTATTGTCTTCTATGCAGAAGTGAACGAAAAGACTCTTCATTCTTAGAGAGTGGAGTTAAGACTGCGAGCAAATTGGCCCTTTCCATGGCTCCCAAGGGCAACAGCGTGCTGCACCTGCCGCTGTGGGTATGCCCAGACTGCCGGAGGACTGTGGAGAAGGAAGAGAGGCACAGCGGTCTTGACCAGCCGGGCCAAGATTTTCTCCTTCACTCATCTCTTGGGGGTTCCCAGCCTGAGACCAGTGGTGCTGGGAGGCTGGCCCTAGGCACACAGACCATGACCTCATCAGGGCTAGGCACCACGCCCTCAGATGCCTGTTCATGTGAGGCCTGCAGTGAACGCAGAGACATCTCAGCAGAGACAGAACGGGAACCACAACAACTGCAGAACTATTGGTCAGAAGTACGCTACATGGTCCGATGCATATACCGCCAGGCAGGGACCCCGCTGGCAGAAGATCAGGACCAGTCTCTGGTTCCCGACAAAGAGGGCGTGAAGGAGCTCGTGGATAGGCTCTGTGAGCGGGACCCCTATCAGCTCTACCAGCGGTTGGAGCAACAAGCCCGGGAATATGTGCTGGAGATGAAGGTCCGCCTGCTTCGGCAGCTCTCTGCTGCAGCCAAGGCCAAGGCACCGTCTGGCTTGCAGGGCCCACCTCAGGCACACCACTTTGTCTCCCTACTCCTGGAGGAGTATGCTGCCCTTTGCCAGGCAGCACGATCCATCAGTACCTTTCTTGGCACTCTGGAAAATGAACATTTGAAAAAGTTCCAGGTGACATGGGAACTGCATAACAAACATCTATTTGAAAATCTGGTCTTTTCAGAGCCACTTCTCCAGAGCAACTTGCCAGCACTGGTGTCTCAGATCAGGCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAGACTCCTTTTAGTTTTGGCATGAATCATAGGACACCACCCTACCCCGCTGGGGATTATTGTCTTCTATGCAGAAGTGAACGAAAAGACTCTTCATTCTTAGAGAGTGGAGTTAAGACTGCGAGCAAATTGGCCCTTTCCATGGCTCCCAAGGGCAACAGCGTGCTGCACCTGCCGCTGTGGGTATGCCCAGACTGCCGGAGGACTGTGGAGAAGGAAGAGAGGCACAGCGGTCTTGACCAGCCGGGCCAAGATTTTCTCCTTCACTCATCTCTTGGGGGTTCCCAGCCTGAGACCAGTGGTGCTGGGAGGCTGGCCCTAGGCACACAGACCATGACCTCATCAGGGCTAGGCACCACGCCCTCAGATGCCTGTTCATGTGAGGCCTGCAGTGAACGCAGAGACATCTCAGCAGAGACAGAACGGGAACCACAACAACTGCAGAACTATTGGTCAGAAGTACGCTACATGGTCCGATGCATATACCGCCAGGCAGGGACCCCGCTGGCAGAAGATCAGGACCAGTCTCTGGTTCCCGACAAAGAGGGCGTGAAGGAGCTCGTGGATAGGCTCTGTGAGCGGGACCCCTATCAGCTCTACCAGCGGTTGGAGCAACAAGCCCGGGAATATGTGCTGGAGATGAAGGTCCGCCTGCTTCGGCAGCTCTCTGCTGCAGCCAAGGCCAAGGCACCGTCTGGCTTGCAGGGCCCACCTCAGGCACACCACTTTGTCTCCCTACTCCTGGAGGAGTATGCTGCCCTTTGCCAGGCAGCACGATCCATCAGTACCTTTCTTGGCACTCTGGAAAATGAACATTTGAAAAAGTTCCAGGTGACATGGGAACTGCATAACAAACATCTATTTGAAAATCTGGTCTTTTCAGAGCCACTTCTCCAGAGCAACTTGCCAGCACTGGTGTCTCAGATCAGGCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAG
Peptide sequence:
MNHRTPPYPAGDYCLLCRSERKDSSFLESGVKTASKLALSMAPKGNSVLHLPLWVCPDCRRTVEKEERHSGLDQPGQDFLLHSSLGGSQPETSGAGRLALGTQTMTSSGLGTTPSDACSCEACSERRDISAETEREPQQLQNYWSEVRYMVRCIYRQAGTPLAEDQDQSLVPDKEGVKELVDRLCERDPYQLYQRLEQQAREYVLEMKVRLLRQLSAAAKAKAPSGLQGPPQAHHFVSLLLEEYAALCQAARSISTFLGTLENEHLKKFQVTWELHNKHLFENLVFSEPLLQSNLPALVSQIRLGTTTHDTCTEDMYSTLLQRYQRSEEELRKVAEEWLECQKRIDAYVDEQTPFSFGMNHRTPPYPAGDYCLLCRSERKDSSFLESGVKTASKLALSMAPKGNSVLHLPLWVCPDCRRTVEKEERHSGLDQPGQDFLLHSSLGGSQPETSGAGRLALGTQTMTSSGLGTTPSDACSCEACSERRDISAETEREPQQLQNYWSEVRYMVRCIYRQAGTPLAEDQDQSLVPDKEGVKELVDRLCERDPYQLYQRLEQQAREYVLEMKVRLLRQLSAAAKAKAPSGLQGPPQAHHFVSLLLEEYAALCQAARSISTFLGTLENEHLKKFQVTWELHNKHLFENLVFSEPLLQSNLPALVSQIRLGTTTHDTCTEDMYSTLLQRYQRSEEELRKVAEEWLECQKRIDAYVDEQ
IRESfinder result
IRESfinder score
0.4687474
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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