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mmu_circ2210408I21Rik_1207
Basic information of circular RNA
PanCircBase ID:
mmu_circ2210408I21Rik_1207
mm39_Chr. Position ID:
chr13|77410007|77451579|+
Gene name:
2210408I21Rik
Transcript:
ENSMUST00000168779.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,9,10,11,12,13,14
Exon/intron offsets:
0,1643,5773,7873,19153,36578,41407
Genomic length:
41572
Exon/intron sizes in nt:
26,61,51,19,11,83,11,10,00,000
Flanking exon/introns:
chr13:77408187-77410007|chr13:77451579-77464466
Splice length:
1207
Other database IDs:
circAtlas: mmu-2210408I21Rik_0011
circAtlas: hsa-KIAA0825_0085, CIRCpedia: HSA_CIRCpedia_147178
Human Ortholog IDs:
Mature spliced Sequence:
TTTTGTTCTGACATCATAGAAAAGCTTGATACAATGCTTCTCCTGGCCCTGGCATGCCGAGATGATTCTCCTCAGGAAATCAAAGAGAACCTGGTAGAGGCCTACAGTAAAGTGGCAACAGCTGTCCTGGAAAGACTGCAGGAGAGAGGAAAGGAGGTTCCTTCCCGAGCACCACTGAAGAACCTGCACAGCATCCTGTCCTCAGCAACGTATGTCTCTCAGCGGTTCACTCACTATGATAATCTGATGAAAGAGACAACTAAGAAACCCATATTCCTGGTGCCTGTCCAGCGCTATCAGGAATTCATCAACACTGTCCAGTTTCAGGTTACGGACTACTGCGCCAGAGTTTGTGCTATGAGCATTTTACAGGATGCTGAGAGCCACCACTGGGATGACTACAAAGCTTTTTATGAGGGGGAAAGATGCTCCTTCGCCATCCAGATGTGGCATTACTTCAGCTTGGCTCTGCATCATGATCTCTGGACCATACTGCCCCCTAAGCTGGCCCAGGAGATTCTAGCAGAGATGCTGGAGAAATCCTTGGGTCTACTTGCCTCCAGATATGCTCGGGCCCACCCCAGTCCTAAGAGAACTGCACAGATAAGACTTGATGTCATGGCAATCTTAATATTCACTGAGAACATGTTATGGTCCATTTGTTCTTCTGGACAGGAAATTTTGAATCCTCATAAATTTAACAACCATAAAATTTTTAAAATTCATACTCATTGCAACAATCTCTTTACAACATTAGCAATTTTGACATCACCATTAACCGAATTATATAAGACTTTTCAGCATGGTGTCGATGAATCACCTTCAAATTCCTTAACTCCATTGTTTAACCAGCCATTACACTGGATTTCATGCATGTCACAGTTCTACCCTTCTCTCCTCAGGCCTCCATCAGTGGGTGGACTGACAGCCCAGGGTCAGTTGAAACTGCTCTTATCGCAGCCTTGCTGTAAGTGGAACCTTCTTCTGGACACCCTGCTTCACAGTGGCGGCCTCATACCGAGAATCCTGTTGAAAAGTTCAAAACAAGCTGCTGGCATGGAGAGTAAGCAGAGTGCAGGTGGTAGCCTGGTGGGCGCCATCTTTGAAGTTCTGTACCATTGTCATTTGTCCTCACAGACATTTGGAAATGTTTTTATGAGTCACATGGAAGAAGAACAACTATGGGACTTTTTATTCAACATTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCATTGTCATTTGTCCTCACAG
59.18
GGGCCAGGAGAAGCATTGTA
59.74
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCATTGTCATTTGTCCTCACA
58.17
GGGCCAGGAGAAGCATTGTA
59.74
142
PCR template sequence:
GTTCTGTACCATTGTCATTTGTCCTCACAGACATTTGGAAATGTTTTTATGAGTCACATGGAAGAAGAACAACTATGGGACTTTTTATTCAACATTCCAGTTTTGTTCTGACATCATAGAAAAGCTTGATACAATGCTTCTCCTGGCCCTGGCATGCCGAGATGATTCTCCTCAGGAAATCAAAGAGAACCTGGTAGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-106b-5p(1), mmu-miR-185-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCAACATTCCAGTTTTGTTCTGACA
siRNA sets
GAACAAAACTGGAATGTTG,AACAAAACTGGAATGTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2210408I21RIK_1207_ORF_1
0.7964
0.07540405
0.993575075
1185
ORF sequence:
ATGCTTCTCCTGGCCCTGGCATGCCGAGATGATTCTCCTCAGGAAATCAAAGAGAACCTGGTAGAGGCCTACAGTAAAGTGGCAACAGCTGTCCTGGAAAGACTGCAGGAGAGAGGAAAGGAGGTTCCTTCCCGAGCACCACTGAAGAACCTGCACAGCATCCTGTCCTCAGCAACGTATGTCTCTCAGCGGTTCACTCACTATGATAATCTGATGAAAGAGACAACTAAGAAACCCATATTCCTGGTGCCTGTCCAGCGCTATCAGGAATTCATCAACACTGTCCAGTTTCAGGTTACGGACTACTGCGCCAGAGTTTGTGCTATGAGCATTTTACAGGATGCTGAGAGCCACCACTGGGATGACTACAAAGCTTTTTATGAGGGGGAAAGATGCTCCTTCGCCATCCAGATGTGGCATTACTTCAGCTTGGCTCTGCATCATGATCTCTGGACCATACTGCCCCCTAAGCTGGCCCAGGAGATTCTAGCAGAGATGCTGGAGAAATCCTTGGGTCTACTTGCCTCCAGATATGCTCGGGCCCACCCCAGTCCTAAGAGAACTGCACAGATAAGACTTGATGTCATGGCAATCTTAATATTCACTGAGAACATGTTATGGTCCATTTGTTCTTCTGGACAGGAAATTTTGAATCCTCATAAATTTAACAACCATAAAATTTTTAAAATTCATACTCATTGCAACAATCTCTTTACAACATTAGCAATTTTGACATCACCATTAACCGAATTATATAAGACTTTTCAGCATGGTGTCGATGAATCACCTTCAAATTCCTTAACTCCATTGTTTAACCAGCCATTACACTGGATTTCATGCATGTCACAGTTCTACCCTTCTCTCCTCAGGCCTCCATCAGTGGGTGGACTGACAGCCCAGGGTCAGTTGAAACTGCTCTTATCGCAGCCTTGCTGTAAGTGGAACCTTCTTCTGGACACCCTGCTTCACAGTGGCGGCCTCATACCGAGAATCCTGTTGAAAAGTTCAAAACAAGCTGCTGGCATGGAGAGTAAGCAGAGTGCAGGTGGTAGCCTGGTGGGCGCCATCTTTGAAGTTCTGTACCATTGTCATTTGTCCTCACAGACATTTGGAAATGTTTTTATGAGTCACATGGAAGAAGAACAACTATGGGACTTTTTATTCAACATTCCAGTTTTGTTCTGA
Peptide sequence:
MLLLALACRDDSPQEIKENLVEAYSKVATAVLERLQERGKEVPSRAPLKNLHSILSSATYVSQRFTHYDNLMKETTKKPIFLVPVQRYQEFINTVQFQVTDYCARVCAMSILQDAESHHWDDYKAFYEGERCSFAIQMWHYFSLALHHDLWTILPPKLAQEILAEMLEKSLGLLASRYARAHPSPKRTAQIRLDVMAILIFTENMLWSICSSGQEILNPHKFNNHKIFKIHTHCNNLFTTLAILTSPLTELYKTFQHGVDESPSNSLTPLFNQPLHWISCMSQFYPSLLRPPSVGGLTAQGQLKLLLSQPCCKWNLLLDTLLHSGGLIPRILLKSSKQAAGMESKQSAGGSLVGAIFEVLYHCHLSSQTFGNVFMSHMEEEQLWDFLFNIPVLF
IRESfinder result
IRESfinder score
0.732697901
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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