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mmu_circTtc3_1244
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc3_1244
mm39_Chr. Position ID:
chr16|94184770|94211815|+
Gene name:
Ttc3
Transcript:
ENSMUST00000117648.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,434,872,1424,3425,4353,6290,8103,9200,19402,24642,25772,26921
Genomic length:
27045
Exon/intron sizes in nt:
155,43,151,88,54,121,86,95,63,55,163,46,124
Flanking exon/introns:
chr16:94171720-94184770|chr16:94211815-94212918
Splice length:
1244
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34781, circAtlas: mmu-Ttc3_0055
circAtlas: hsa-TTC3_0076, CIRCpedia: HSA_CIRCpedia_163485
Human Ortholog IDs:
Mature spliced Sequence:
GACTGTGCAGCATGGATGACTTTGCTGAGGGAGGTCTCAGTTTGGCAGATGATATCTTACTGGAAGATTACCCTTATGAGGATGACTGTATCTGTACTCCTGACTTTACCACTGACGATTATGTTCGAGTAACCCAGCTTTACTATGAAGGCGTGGGTATGCAATATAAAGATTATGCCCAAAGTGAGAAAAATTTAGAATATGACATCTGCAATATCTGGTGCAGTAAGCCACTCTCCATCCTGCAAGATTACTGTGATGCCATTAAGCTGTACATCTTCTGGCCACTTCTTTTTCAACATCAACACAGTTCTATAATATCAAGATTGCACCCCTGTGTAGAAGCCATCCGTTCTCGTGCTGCTGAGATAAGTTTGAAGAAATTACAACATCTTGAGTTGATGGAAGACATTGTGGATTTGGCAAAGAAAGTTGCAAATGATTCATTCCTTATTGAAGGCTTATTGAAAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACCTGCTTTTAGGACATCAC
59.84
GCCAAACTGAGACCTCCCTC
60.04
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACCTGCTTTTAGGACATCA
58.56
GCCAAACTGAGACCTCCCTC
60.04
145
PCR template sequence:
AGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGACTGTGCAGCATGGATGACTTTGCTGAGGGAGGTCTCAGTTTGGCAGATGATATCTTACTGGAAGATTACCCTTATGAGGATGACTGTATCTGTACTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-328-3p(1), mmu-miR-217-5p(1), mmu-miR-320-3p(1), mmu-miR-362-5p(1), mmu-miR-342-5p(1), mmu-miR-377-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGAATCAAAAGGACTGTGCAGCAT
siRNA sets
ATGCTGCACAGTCCTTTTG, CACAGTCCTTTTGATTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC3_1244_ORF_1
0.7741
-0.007775334
0.997418458
1365
ORF sequence:
ATGGATGACTTTGCTGAGGGAGGTCTCAGTTTGGCAGATGATATCTTACTGGAAGATTACCCTTATGAGGATGACTGTATCTGTACTCCTGACTTTACCACTGACGATTATGTTCGAGTAACCCAGCTTTACTATGAAGGCGTGGGTATGCAATATAAAGATTATGCCCAAAGTGAGAAAAATTTAGAATATGACATCTGCAATATCTGGTGCAGTAAGCCACTCTCCATCCTGCAAGATTACTGTGATGCCATTAAGCTGTACATCTTCTGGCCACTTCTTTTTCAACATCAACACAGTTCTATAATATCAAGATTGCACCCCTGTGTAGAAGCCATCCGTTCTCGTGCTGCTGAGATAAGTTTGAAGAAATTACAACATCTTGAGTTGATGGAAGACATTGTGGATTTGGCAAAGAAAGTTGCAAATGATTCATTCCTTATTGAAGGCTTATTGAAAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGATGCTTTAAATTGGATAAAATACACGGGTGATGTAACAATTCTACCTAAATTAGGATCAGTTGACAATTGCTGGCCCATGCTAAGTATTTTCTTTACTGAATATAAGTACCATATTACTAGAGTTGTAACTGAAAATTGCAACTTGCTAGAAGAATTTAGAAGGCATAGTTGCATGCAGTGTGTGAAGCAAGGAGAACTCATGAAAATGAGAGGAAATGAAGAGTTCTCAAAGGAAAAGTTTGAAATAGCTGTTATTTATTACACCAGAGCCATTGAATATAGACCTGAAAACCATCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTATGGGGCAGTTTAGAAATGCACTTAGCGATGGAAAGAGGGCCATTGTTTTGAAGAACACCTGGCCAAAGGGTCATTATCGTTATTGTGATGCTCTTTGTATGCTGGGGGAATATGACTGGGCCCTGCAAGCAAACATAAAAGCTCAAAAACTCTGTAAAAATGACCCTGAGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGGACATCAAATAAGAATCCAATTAAAGCTTTTTATGAAAGCAGGGCTTACATACCTAGAAACTCATCAGCACCTGCTTTTAGGACATCACTTAACTTTGTGGAAACAGAAAGAGGTTTCAGAAAAACTAAGTACAAAATGGCAAATGGTGGCGATCAGAATCAAAAGGACTGTGCAGCATGGATGACTTTGCTGAGGGAGGTCTCAGTTTGGCAGATGATATCTTACTGGAAGATTACCCTTATGAGGATGACTGTATCTGTACTCCTGACTTTACCACTGACGATTATGTTCGAGTAA
Peptide sequence:
MDDFAEGGLSLADDILLEDYPYEDDCICTPDFTTDDYVRVTQLYYEGVGMQYKDYAQSEKNLEYDICNIWCSKPLSILQDYCDAIKLYIFWPLLFQHQHSSIISRLHPCVEAIRSRAAEISLKKLQHLELMEDIVDLAKKVANDSFLIEGLLKIGYKIENKILAMEDALNWIKYTGDVTILPKLGSVDNCWPMLSIFFTEYKYHITRVVTENCNLLEEFRRHSCMQCVKQGELMKMRGNEEFSKEKFEIAVIYYTRAIEYRPENHLLYGNRALCFLRMGQFRNALSDGKRAIVLKNTWPKGHYRYCDALCMLGEYDWALQANIKAQKLCKNDPEGIKDLIQQHVKLQKQIEDLQGRTSNKNPIKAFYESRAYIPRNSSAPAFRTSLNFVETERGFRKTKYKMANGGDQNQKDCAAWMTLLREVSVWQMISYWKITLMRMTVSVLLTLPLTIMFE
IRESfinder result
IRESfinder score
0.652963266
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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