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mmu_circ2210408I21Rik_1344
Basic information of circular RNA
PanCircBase ID:
mmu_circ2210408I21Rik_1344
mm39_Chr. Position ID:
chr13|77446585|77482482|+
Gene name:
2210408I21Rik
Transcript:
ENSMUST00000168779.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,14,15,16,17,18,19
Exon/intron offsets:
0,4829,17881,24898,29400,33836,35802
Genomic length:
35897
Exon/intron sizes in nt:
140,165,225,406,157,156,95
Flanking exon/introns:
chr13:77429271-77446585|chr13:77482482-77760645
Splice length:
1344
Other database IDs:
circAtlas: mmu-2210408I21Rik_0026
circBase: hsa_circ_0130024, circAtlas: hsa-KIAA0825_0028, CIRCpedia: HSA_CIRCpedia_136692
Human Ortholog IDs:
Mature spliced Sequence:
GCCTCCATCAGTGGGTGGACTGACAGCCCAGGGTCAGTTGAAACTGCTCTTATCGCAGCCTTGCTGTAAGTGGAACCTTCTTCTGGACACCCTGCTTCACAGTGGCGGCCTCATACCGAGAATCCTGTTGAAAAGTTCAAAACAAGCTGCTGGCATGGAGAGTAAGCAGAGTGCAGGTGGTAGCCTGGTGGGCGCCATCTTTGAAGTTCTGTACCATTGTCATTTGTCCTCACAGACATTTGGAAATGTTTTTATGAGTCACATGGAAGAAGAACAACTATGGGACTTTTTATTCAACATTCCAGTCTCATCGTTCACAGAGTCTCAGCCAGAAGTCATCCACTGTCTGAGACTGGCACTGATGGACTCTGTAAAGGACACTGTGCAACAGATAATATCCATCATGAGATGTCGGAGAAACAGCGAGACAAACCTAAACAAGCCCCGTGTTCCTGATCATCTGCTTCAGAGCATTCCACAAGGATGGAATTATATCCCAAGAGATTCCAGAGGGAAAGAGTCAAATAAAGGCATCACGGAGCTTGCTGCTCAGGCAGTGTCTATTGTCCTCAGCAAGTTACCTACAGTGATTGCATGCTTGCCTCCCACAATTAAATACTTCTTTTTTCTGTCTGAGAGAAAAATGTCAAAAAATTTGGCTGAATTGAAGAAAGCTGGCCTGCTTGTCTGGAACTTGATTATAATTATATGTCGGATATTTGAGGATGGGAACACCGTGGAACGTTTAACAGGTTCCTCCCTTGACAGATGGAGTAAGGAGAAACTGGGTTTAATTTGCTTGTGTTTGGAAAGTATCCTGGGAAAGCAAAGCAATCCTAGTCAGCTGACCCAAAAGGTCATCCTGAGCATCGAGCGGCAAAAACCCAACTGGATGGAGCAACAGCTTCTGAAAGCAAGGACACTGAGCATCCAATGTGCATTCACGAGGATGGAGGAAAACTCAGGCTCAGAAGGAGAAGCTGCTCTTGAACTGACTGAGCAGAAAACAAATGCGATGGTCCTGGATCTCTGCCACAAACCAGGTGGCAGCAAGTACCTGCAGCAAATTTATCACATCATGCAGCTCAATGAGGAATATTTAAAAGAACAACTGTTTGCTATGAATGGCTCAGAAGAAAAGCCATTACTCATCAGACCTTTGAAGGTAGCCTTGAGGGATGAAGATCAGCCTCCTGCTTTTAACCCTTTTCATGTGCATAAGGTGGTCAGTGAAAGCATGCTAGATCAGGTGGCCACAGTGACATGGTGCTGCGACTGGTCAAACTTGCTGCCAAATTACCTAGGACTGAATAAGATGACCTTCGGTGCACTATTCAAAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGACTGGTCAAACTTGCTGC
60.04
GTGAAGCAGGGTGTCCAGAA
59.89
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGACTGGTCAAACTTGCTG
60.04
GTGAAGCAGGGTGTCCAGAA
59.89
173
PCR template sequence:
ATCAGGTGGCCACAGTGACATGGTGCTGCGACTGGTCAAACTTGCTGCCAAATTACCTAGGACTGAATAAGATGACCTTCGGTGCACTATTCAAAAACAGGCCTCCATCAGTGGGTGGACTGACAGCCCAGGGTCAGTTGAAACTGCTCTTATCGCAGCCTTGCTGTAAGTGGAACCTTCTTCTGGACACCCTGCTTCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-135a-5p(1), mmu-miR-211-5p(1), mmu-miR-322-5p(1), mmu-miR-433-3p(1), mmu-miR-705(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TATTCAAAAACAGGCCTCCATCAGTG
siRNA sets
GATGGAGGCCTGTTTTTGA,ATGGAGGCCTGTTTTTGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2210408I21RIK_1344_ORF_1
0.851
0.094744116
0.999999674
2532
ORF sequence:
ATGGAGAGTAAGCAGAGTGCAGGTGGTAGCCTGGTGGGCGCCATCTTTGAAGTTCTGTACCATTGTCATTTGTCCTCACAGACATTTGGAAATGTTTTTATGAGTCACATGGAAGAAGAACAACTATGGGACTTTTTATTCAACATTCCAGTCTCATCGTTCACAGAGTCTCAGCCAGAAGTCATCCACTGTCTGAGACTGGCACTGATGGACTCTGTAAAGGACACTGTGCAACAGATAATATCCATCATGAGATGTCGGAGAAACAGCGAGACAAACCTAAACAAGCCCCGTGTTCCTGATCATCTGCTTCAGAGCATTCCACAAGGATGGAATTATATCCCAAGAGATTCCAGAGGGAAAGAGTCAAATAAAGGCATCACGGAGCTTGCTGCTCAGGCAGTGTCTATTGTCCTCAGCAAGTTACCTACAGTGATTGCATGCTTGCCTCCCACAATTAAATACTTCTTTTTTCTGTCTGAGAGAAAAATGTCAAAAAATTTGGCTGAATTGAAGAAAGCTGGCCTGCTTGTCTGGAACTTGATTATAATTATATGTCGGATATTTGAGGATGGGAACACCGTGGAACGTTTAACAGGTTCCTCCCTTGACAGATGGAGTAAGGAGAAACTGGGTTTAATTTGCTTGTGTTTGGAAAGTATCCTGGGAAAGCAAAGCAATCCTAGTCAGCTGACCCAAAAGGTCATCCTGAGCATCGAGCGGCAAAAACCCAACTGGATGGAGCAACAGCTTCTGAAAGCAAGGACACTGAGCATCCAATGTGCATTCACGAGGATGGAGGAAAACTCAGGCTCAGAAGGAGAAGCTGCTCTTGAACTGACTGAGCAGAAAACAAATGCGATGGTCCTGGATCTCTGCCACAAACCAGGTGGCAGCAAGTACCTGCAGCAAATTTATCACATCATGCAGCTCAATGAGGAATATTTAAAAGAACAACTGTTTGCTATGAATGGCTCAGAAGAAAAGCCATTACTCATCAGACCTTTGAAGGTAGCCTTGAGGGATGAAGATCAGCCTCCTGCTTTTAACCCTTTTCATGTGCATAAGGTGGTCAGTGAAAGCATGCTAGATCAGGTGGCCACAGTGACATGGTGCTGCGACTGGTCAAACTTGCTGCCAAATTACCTAGGACTGAATAAGATGACCTTCGGTGCACTATTCAAAAACAGGCCTCCATCAGTGGGTGGACTGACAGCCCAGGGTCAGTTGAAACTGCTCTTATCGCAGCCTTGCTGTAAGTGGAACCTTCTTCTGGACACCCTGCTTCACAGTGGCGGCCTCATACCGAGAATCCTGTTGAAAAGTTCAAAACAAGCTGCTGGCATGGAGAGTAAGCAGAGTGCAGGTGGTAGCCTGGTGGGCGCCATCTTTGAAGTTCTGTACCATTGTCATTTGTCCTCACAGACATTTGGAAATGTTTTTATGAGTCACATGGAAGAAGAACAACTATGGGACTTTTTATTCAACATTCCAGTCTCATCGTTCACAGAGTCTCAGCCAGAAGTCATCCACTGTCTGAGACTGGCACTGATGGACTCTGTAAAGGACACTGTGCAACAGATAATATCCATCATGAGATGTCGGAGAAACAGCGAGACAAACCTAAACAAGCCCCGTGTTCCTGATCATCTGCTTCAGAGCATTCCACAAGGATGGAATTATATCCCAAGAGATTCCAGAGGGAAAGAGTCAAATAAAGGCATCACGGAGCTTGCTGCTCAGGCAGTGTCTATTGTCCTCAGCAAGTTACCTACAGTGATTGCATGCTTGCCTCCCACAATTAAATACTTCTTTTTTCTGTCTGAGAGAAAAATGTCAAAAAATTTGGCTGAATTGAAGAAAGCTGGCCTGCTTGTCTGGAACTTGATTATAATTATATGTCGGATATTTGAGGATGGGAACACCGTGGAACGTTTAACAGGTTCCTCCCTTGACAGATGGAGTAAGGAGAAACTGGGTTTAATTTGCTTGTGTTTGGAAAGTATCCTGGGAAAGCAAAGCAATCCTAGTCAGCTGACCCAAAAGGTCATCCTGAGCATCGAGCGGCAAAAACCCAACTGGATGGAGCAACAGCTTCTGAAAGCAAGGACACTGAGCATCCAATGTGCATTCACGAGGATGGAGGAAAACTCAGGCTCAGAAGGAGAAGCTGCTCTTGAACTGACTGAGCAGAAAACAAATGCGATGGTCCTGGATCTCTGCCACAAACCAGGTGGCAGCAAGTACCTGCAGCAAATTTATCACATCATGCAGCTCAATGAGGAATATTTAAAAGAACAACTGTTTGCTATGAATGGCTCAGAAGAAAAGCCATTACTCATCAGACCTTTGAAGGTAGCCTTGAGGGATGAAGATCAGCCTCCTGCTTTTAACCCTTTTCATGTGCATAAGGTGGTCAGTGAAAGCATGCTAGATCAGGTGGCCACAGTGACATGGTGCTGCGACTGGTCAAACTTGCTGCCAAATTACCTAGGACTGAATAAGATGACCTTCGGTGCACTATTCAAAAAC
Peptide sequence:
MESKQSAGGSLVGAIFEVLYHCHLSSQTFGNVFMSHMEEEQLWDFLFNIPVSSFTESQPEVIHCLRLALMDSVKDTVQQIISIMRCRRNSETNLNKPRVPDHLLQSIPQGWNYIPRDSRGKESNKGITELAAQAVSIVLSKLPTVIACLPPTIKYFFFLSERKMSKNLAELKKAGLLVWNLIIIICRIFEDGNTVERLTGSSLDRWSKEKLGLICLCLESILGKQSNPSQLTQKVILSIERQKPNWMEQQLLKARTLSIQCAFTRMEENSGSEGEAALELTEQKTNAMVLDLCHKPGGSKYLQQIYHIMQLNEEYLKEQLFAMNGSEEKPLLIRPLKVALRDEDQPPAFNPFHVHKVVSESMLDQVATVTWCCDWSNLLPNYLGLNKMTFGALFKNRPPSVGGLTAQGQLKLLLSQPCCKWNLLLDTLLHSGGLIPRILLKSSKQAAGMESKQSAGGSLVGAIFEVLYHCHLSSQTFGNVFMSHMEEEQLWDFLFNIPVSSFTESQPEVIHCLRLALMDSVKDTVQQIISIMRCRRNSETNLNKPRVPDHLLQSIPQGWNYIPRDSRGKESNKGITELAAQAVSIVLSKLPTVIACLPPTIKYFFFLSERKMSKNLAELKKAGLLVWNLIIIICRIFEDGNTVERLTGSSLDRWSKEKLGLICLCLESILGKQSNPSQLTQKVILSIERQKPNWMEQQLLKARTLSIQCAFTRMEENSGSEGEAALELTEQKTNAMVLDLCHKPGGSKYLQQIYHIMQLNEEYLKEQLFAMNGSEEKPLLIRPLKVALRDEDQPPAFNPFHVHKVVSESMLDQVATVTWCCDWSNLLPNYLGLNKMTFGALFKN
IRESfinder result
IRESfinder score
0.648093023
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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