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mmu_circTbc1d19_1002
Basic information of circular RNA
PanCircBase ID:
mmu_circTbc1d19_1002
mm39_Chr. Position ID:
chr5|53995265|54054448|+
Gene name:
Tbc1d19
Transcript:
ENSMUST00000037337.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
7,8,9,10,11,12,13,14,15,16,17,18,19
Exon/intron offsets:
0,203,8277,10238,11914,18924,22220,34329,36963,45738,49430,51392,59067
Genomic length:
59183
Exon/intron sizes in nt:
4,71,11,73,39,11,37,56,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:53994001-53995265|chr5:54054448-54058918
Splice length:
1002
Other database IDs:
CIRCpedia: MMU_CIRCpedia_221187, circAtlas: mmu-Tbc1d19_0048
circBase: hsa_circ_0069387
Human Ortholog IDs:
Mature spliced Sequence:
ATTTAAGCCTTTTTCGACCCGTTTATGCACCTAAGGACTTTCTTGAGGTATTAATTAATCTCCGCAACCCAAATTATGAAAATGGTGATTCTCTTAGTTTTAGGACTCATTTGGGTTTAATCCAAGTTCCTCTGAAAGTAAAAGACATCCCTGAATTGAAAGAATGCTTTGTAGAACTTGGCTTAAACACAGGACAACTGGGAATAGATGATTCTACACAAGTGCCTCCTGAACTTTTTGAAAATGAACATGTGCGTATTGGGCAGAAAGTTCTAGCGCAGCAGGACAGCGCTGCTGCTCAGCAGTACATCCGACAAGGAAGTCCCACAGCACTGAGAGCTGAGCTCTGGGCGCTCATTCTGAATATCTCCAGTCAGCCTGAGGATATCCTGTATTATGAGCAGCTTAAGACCAATGTGATCCAGCACGACCTTTTGGTGGACAGTCTCATTTATAAAGATGTGAAGCTGACAGCAAGCAATGATGATTACTATTTTGTATTTGAAGATTATTTATATCAGGTGTTACTTTGCTTTTCACGGGATACGTCTGTACTGGGCCACTTTGCATACAACAGTGCTTCACCGCCGAAGTCATACATCAGAGGAAAACTAGGATTAGAAGAATATGCTGTTTTCTATCCGCCCAATGGTGTCATCCCTTTCCATGGGTTTTCCATGTATGTTGCACCATTGTGTTTTCTGTATCATGAACCTTACAAATTGTATCAGATATTCCGTGAGATGTACGTCCGCTTTTTCTTCAGACTCCACTCCATCTCCTCTCATCCTTCTGGTATTGTGTCACTCTGTTTGCTGTTTGAAACTCTTCTTCAAACGTATCTTCCCCAACTCTTTTATCATCTGCGAGAAATTGGAGCTCAACCACTTCGGATATCATTTAAATGGATGGTTCGAGCTTTTTCTGGATACTTAGCTACAGATCAACTCTTGCTTTTATGGGATAGAATTCTAGGATACAACTCTCTGGAAATACTTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGGTTCGAGCTTTTTCTGG
59.84
CCTCAAGAAAGTCCTTAGGTGCA
60.24
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGGTTCGAGCTTTTTCTGG
59.84
ACCTCAAGAAAGTCCTTAGGTGC
60.24
145
PCR template sequence:
AAATGGATGGTTCGAGCTTTTTCTGGATACTTAGCTACAGATCAACTCTTGCTTTTATGGGATAGAATTCTAGGATACAACTCTCTGGAAATACTTGCTGATTTAAGCCTTTTTCGACCCGTTTATGCACCTAAGGACTTTCTTGAGGTATTAATTAATCTCCGCAACCCAAATTATGAAAATGGTGATTCTCTTAGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(1), mmu-miR-494-3p(1), mmu-miR-370-3p(1), mmu-miR-369-3p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAATACTTGCTGATTTAAGCCTTTT
siRNA sets
AAAGGCTTAAATCAGCAAG, TTAAATCAGCAAGTATTTC, AAGGCTTAAATCAGCAAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTBC1D19_1002_ORF_1
0.8977
-0.028239978
0.997078837
1326
ORF sequence:
ATGTATGTTGCACCATTGTGTTTTCTGTATCATGAACCTTACAAATTGTATCAGATATTCCGTGAGATGTACGTCCGCTTTTTCTTCAGACTCCACTCCATCTCCTCTCATCCTTCTGGTATTGTGTCACTCTGTTTGCTGTTTGAAACTCTTCTTCAAACGTATCTTCCCCAACTCTTTTATCATCTGCGAGAAATTGGAGCTCAACCACTTCGGATATCATTTAAATGGATGGTTCGAGCTTTTTCTGGATACTTAGCTACAGATCAACTCTTGCTTTTATGGGATAGAATTCTAGGATACAACTCTCTGGAAATACTTGCTGATTTAAGCCTTTTTCGACCCGTTTATGCACCTAAGGACTTTCTTGAGGTATTAATTAATCTCCGCAACCCAAATTATGAAAATGGTGATTCTCTTAGTTTTAGGACTCATTTGGGTTTAATCCAAGTTCCTCTGAAAGTAAAAGACATCCCTGAATTGAAAGAATGCTTTGTAGAACTTGGCTTAAACACAGGACAACTGGGAATAGATGATTCTACACAAGTGCCTCCTGAACTTTTTGAAAATGAACATGTGCGTATTGGGCAGAAAGTTCTAGCGCAGCAGGACAGCGCTGCTGCTCAGCAGTACATCCGACAAGGAAGTCCCACAGCACTGAGAGCTGAGCTCTGGGCGCTCATTCTGAATATCTCCAGTCAGCCTGAGGATATCCTGTATTATGAGCAGCTTAAGACCAATGTGATCCAGCACGACCTTTTGGTGGACAGTCTCATTTATAAAGATGTGAAGCTGACAGCAAGCAATGATGATTACTATTTTGTATTTGAAGATTATTTATATCAGGTGTTACTTTGCTTTTCACGGGATACGTCTGTACTGGGCCACTTTGCATACAACAGTGCTTCACCGCCGAAGTCATACATCAGAGGAAAACTAGGATTAGAAGAATATGCTGTTTTCTATCCGCCCAATGGTGTCATCCCTTTCCATGGGTTTTCCATGTATGTTGCACCATTGTGTTTTCTGTATCATGAACCTTACAAATTGTATCAGATATTCCGTGAGATGTACGTCCGCTTTTTCTTCAGACTCCACTCCATCTCCTCTCATCCTTCTGGTATTGTGTCACTCTGTTTGCTGTTTGAAACTCTTCTTCAAACGTATCTTCCCCAACTCTTTTATCATCTGCGAGAAATTGGAGCTCAACCACTTCGGATATCATTTAAATGGATGGTTCGAGCTTTTTCTGGATACTTAGCTACAGATCAACTCTTGCTTTTATGGGATAGAATTCTAGGATACAACTCTCTGGAAATACTTGCT
Peptide sequence:
MYVAPLCFLYHEPYKLYQIFREMYVRFFFRLHSISSHPSGIVSLCLLFETLLQTYLPQLFYHLREIGAQPLRISFKWMVRAFSGYLATDQLLLLWDRILGYNSLEILADLSLFRPVYAPKDFLEVLINLRNPNYENGDSLSFRTHLGLIQVPLKVKDIPELKECFVELGLNTGQLGIDDSTQVPPELFENEHVRIGQKVLAQQDSAAAQQYIRQGSPTALRAELWALILNISSQPEDILYYEQLKTNVIQHDLLVDSLIYKDVKLTASNDDYYFVFEDYLYQVLLCFSRDTSVLGHFAYNSASPPKSYIRGKLGLEEYAVFYPPNGVIPFHGFSMYVAPLCFLYHEPYKLYQIFREMYVRFFFRLHSISSHPSGIVSLCLLFETLLQTYLPQLFYHLREIGAQPLRISFKWMVRAFSGYLATDQLLLLWDRILGYNSLEILA
IRESfinder result
IRESfinder score
0.810724722
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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