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mmu_circTtc17_1090
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc17_1090
mm39_Chr. Position ID:
chr2|94172971|94197013|-
Gene name:
Ttc17
Transcript:
ENSMUST00000111238.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
17,16,15,14,13,12,11
Exon/intron offsets:
0,16124,19713,20073,21639,21947,23895
Genomic length:
24042
Exon/intron sizes in nt:
1,71,18,72,25,78,16,61,00,000
Flanking exon/introns:
chr2:94163397-94172971|chr2:94197013-94199657
Splice length:
1090
Other database IDs:
circAtlas: mmu-Ttc17_0002
circBase: hsa_circ_0095833, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_4385
Human Ortholog IDs:
Mature spliced Sequence:
TTTGGTGATGATTCGTCAACCTCCAGTATGATGTCCGTGAACTTCGATGTTCCTACAAATCAGAGTGATGTCAGCGAGTCTGTCAGGTCTTCTCCTGTAGCCCATTCTGTTCTCTGGGTCTGGGGCCGTGACTCTGATGCGTATAGGGACAAACAACATATTCTTTGGCCTAAAAGAGCAGATTGTACAGACAGCTATCCCAGAGTTCCCCTTGGTGGAGAATTGCCAACATACTTTCTGCCTCCGGAGAACAAAGGACTCAGGATCCACGAACTGACCAGTGATGATTATTCTTCAGAAGAGGAGGCCCAACCCCCTGACTGTTCCATAACTGACTACAGAAAAAGCCACACTCTGTCCTACTTAGTCAAAGAATTAGAGGTCCGCATGGATCTGAAAGCCAAAATACCCGATGACCATGCACGCAAAATTTTACTTTCCCGTATTAAAAACTATACTGTCCCAGAAGAAGAAATTGGGTCTTTCTTGTTTCATGCTATTAACAAGCCAAATGCTCCTGTCTGGCTCATTCTGAATGAAGCAGGCCTGTACTGGAGAGCAGTAGGAAACAGCACCTTTGCTATCGCCTGCCTCCAGAGGGCTTTGAATTTAGCTCCAGTTCAATACCAGGACATTCCTCTTGTCAACCTGGCCAACCTTTTGATTCATTACGGCCTTCATCTTGATGCTACAAAGTTGCTGCTGCAAGCCGTGGCTGTCAACAGCTCTGAGCCCCTGACCTTTTTGAGCCTGGGAAATGCTTACCTTGCTCTGAAGAATGTCAGCGGGGCACTTGAAGCCTTCAGACAGGCCTTGAAGCTAAGCACCAAATGCCCAGAGTGTGAGAGCAGCCTGAAGCTGATCCGCTGCATGCAGTTCTACCCGTTCCTGTACAACGCCACCTCTTCTGTCTGTGGCGGTCATTGTCATGAGAAACCCCTGGACAACAGCCATGACAAACAGAAATACTTTGCCAAGCCACAGTCATTGGATGCTGCTGCAGAAGAGCCCTCTGGGCACGGAGCAGACGAGGACCCTGTGCTGTCTGTTGAGAACGCAGGGAGGGACTCAGATGCCCTTAGACTTGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTGTTGAGAACGCAGGGA
59.97
AGAAGACCTGACAGACTCGC
59.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACCCTGTGCTGTCTGTTGA
59.89
GAAGACCTGACAGACTCGCT
59.11
150
PCR template sequence:
GATGCTGCTGCAGAAGAGCCCTCTGGGCACGGAGCAGACGAGGACCCTGTGCTGTCTGTTGAGAACGCAGGGAGGGACTCAGATGCCCTTAGACTTGAAATTTGGTGATGATTCGTCAACCTCCAGTATGATGTCCGTGAACTTCGATGTTCCTACAAATCAGAGTGATGTCAGCGAGTCTGTCAGGTCTTCTCCTGTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(2), mmu-miR-5101(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-let-7e-5p(1), mmu-miR-223-3p(1), mmu-miR-15b-5p(1), mmu-miR-217-5p(1), mmu-miR-326-3p(1), mmu-miR-98-5p(1), mmu-miR-1199-5p(1), mmu-miR-544-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTAGACTTGAAATTTGGTGATGATT
siRNA sets
ATCACCAAATTTCAAGTCT, AATCATCACCAAATTTCAA, TCATCACCAAATTTCAAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC17_1090_ORF_1
0.9983
0.168506162
0.998128233
1251
ORF sequence:
ATGAGAAACCCCTGGACAACAGCCATGACAAACAGAAATACTTTGCCAAGCCACAGTCATTGGATGCTGCTGCAGAAGAGCCCTCTGGGCACGGAGCAGACGAGGACCCTGTGCTGTCTGTTGAGAACGCAGGGAGGGACTCAGATGCCCTTAGACTTGAAATTTGGTGATGATTCGTCAACCTCCAGTATGATGTCCGTGAACTTCGATGTTCCTACAAATCAGAGTGATGTCAGCGAGTCTGTCAGGTCTTCTCCTGTAGCCCATTCTGTTCTCTGGGTCTGGGGCCGTGACTCTGATGCGTATAGGGACAAACAACATATTCTTTGGCCTAAAAGAGCAGATTGTACAGACAGCTATCCCAGAGTTCCCCTTGGTGGAGAATTGCCAACATACTTTCTGCCTCCGGAGAACAAAGGACTCAGGATCCACGAACTGACCAGTGATGATTATTCTTCAGAAGAGGAGGCCCAACCCCCTGACTGTTCCATAACTGACTACAGAAAAAGCCACACTCTGTCCTACTTAGTCAAAGAATTAGAGGTCCGCATGGATCTGAAAGCCAAAATACCCGATGACCATGCACGCAAAATTTTACTTTCCCGTATTAAAAACTATACTGTCCCAGAAGAAGAAATTGGGTCTTTCTTGTTTCATGCTATTAACAAGCCAAATGCTCCTGTCTGGCTCATTCTGAATGAAGCAGGCCTGTACTGGAGAGCAGTAGGAAACAGCACCTTTGCTATCGCCTGCCTCCAGAGGGCTTTGAATTTAGCTCCAGTTCAATACCAGGACATTCCTCTTGTCAACCTGGCCAACCTTTTGATTCATTACGGCCTTCATCTTGATGCTACAAAGTTGCTGCTGCAAGCCGTGGCTGTCAACAGCTCTGAGCCCCTGACCTTTTTGAGCCTGGGAAATGCTTACCTTGCTCTGAAGAATGTCAGCGGGGCACTTGAAGCCTTCAGACAGGCCTTGAAGCTAAGCACCAAATGCCCAGAGTGTGAGAGCAGCCTGAAGCTGATCCGCTGCATGCAGTTCTACCCGTTCCTGTACAACGCCACCTCTTCTGTCTGTGGCGGTCATTGTCATGAGAAACCCCTGGACAACAGCCATGACAAACAGAAATACTTTGCCAAGCCACAGTCATTGGATGCTGCTGCAGAAGAGCCCTCTGGGCACGGAGCAGACGAGGACCCTGTGCTGTCTGTTGAGAACGCAGGGAGGGACTCAGATGCCCTTAGACTTGAA
Peptide sequence:
MRNPWTTAMTNRNTLPSHSHWMLLQKSPLGTEQTRTLCCLLRTQGGTQMPLDLKFGDDSSTSSMMSVNFDVPTNQSDVSESVRSSPVAHSVLWVWGRDSDAYRDKQHILWPKRADCTDSYPRVPLGGELPTYFLPPENKGLRIHELTSDDYSSEEEAQPPDCSITDYRKSHTLSYLVKELEVRMDLKAKIPDDHARKILLSRIKNYTVPEEEIGSFLFHAINKPNAPVWLILNEAGLYWRAVGNSTFAIACLQRALNLAPVQYQDIPLVNLANLLIHYGLHLDATKLLLQAVAVNSSEPLTFLSLGNAYLALKNVSGALEAFRQALKLSTKCPECESSLKLIRCMQFYPFLYNATSSVCGGHCHEKPLDNSHDKQKYFAKPQSLDAAAEEPSGHGADEDPVLSVENAGRDSDALRLE
IRESfinder result
IRESfinder score
0.581942101
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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