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mmu_circYwhab_687
Basic information of circular RNA
PanCircBase ID:
mmu_circYwhab_687
mm39_Chr. Position ID:
chr2|163853521|163858118|+
Gene name:
Ywhab
Transcript:
ENSMUST00000018470.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,2404,3629,4501
Genomic length:
4597
Exon/intron sizes in nt:
303,124,164,96
Flanking exon/introns:
chr2:163837285-163853521|chr2:163858118-163858588
Splice length:
687
Other database IDs:
circAtlas: mmu-Ywhab_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_350665
Human Ortholog IDs:
Mature spliced Sequence:
AAAATGACCATGGATAAGAGTGAGCTGGTACAGAAAGCCAAACTGGCTGAGCAGGCTGAGCGCTATGATGACATGGCTGCAGCTATGAAGGCCGTAACAGAGCAGGGACACGAACTCTCCAATGAAGAGAGGAATCTACTCTCTGTTGCCTACAAGAACGTGGTAGGTGCCCGCCGCTCTTCCTGGCGTGTCATCTCCAGCATCGAACAGAAAACCGAGAGGAATGAGAAGAAGCAGCAGATGGGCAAAGAGTACCGTGAGAAGATCGAGGCGGAGCTGCAGGACATCTGCAACGATGTGCTGGAGCTGTTGGACAAATATCTCATTCTCAATGCCACCCAGGCAGAAAGCAAAGTGTTCTACTTAAAAATGAAAGGAGACTACTTTAGGTATCTTTCTGAAGTTGCATCCGGAGAAAATAAACAAACCACGGTGTCCAACTCCCAGCAGGCTTACCAAGAAGCATTTGAAATCAGCAAGAAAGAAATGCAGCCTACACACCCGATTCGCCTCGGCCTGGCGCTGAATTTCTCAGTCTTTTACTATGAGATTCTAAACTCTCCTGAAAAGGCCTGCAGCCTGGCCAAAACGGCATTTGATGAGGCGATTGCTGAGTTGGACACCCTGAATGAAGAGTCTTACAAAGACAGCACCCTGATCATGCAGCTGCTCAGGGACAATCTCACC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAGTTGGACACCCTGAA
59.89
TACGGCCTTCATAGCTGCAG
59.9
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAGTTGGACACCCTGAA
59.89
AGCTGCAGCCATGTCATCAT
60.11
162
PCR template sequence:
AACGGCATTTGATGAGGCGATTGCTGAGTTGGACACCCTGAATGAAGAGTCTTACAAAGACAGCACCCTGATCATGCAGCTGCTCAGGGACAATCTCACCAAAATGACCATGGATAAGAGTGAGCTGGTACAGAAAGCCAAACTGGCTGAGCAGGCTGAGCGCTATGATGACATGGCTGCAGCTATGAAGGCCGTAACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-196a-5p(1), mmu-miR-351-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-370-3p(1), mmu-miR-5101(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACAATCTCACCAAAATGACCATGG
siRNA sets
ATGGTCATTTTGGTGAGAT, CATTTTGGTGAGATTGTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCYWHAB_687_ORF_1
1.1784
0.451076141
0.999825606
1371
ORF sequence:
ATGACCATGGATAAGAGTGAGCTGGTACAGAAAGCCAAACTGGCTGAGCAGGCTGAGCGCTATGATGACATGGCTGCAGCTATGAAGGCCGTAACAGAGCAGGGACACGAACTCTCCAATGAAGAGAGGAATCTACTCTCTGTTGCCTACAAGAACGTGGTAGGTGCCCGCCGCTCTTCCTGGCGTGTCATCTCCAGCATCGAACAGAAAACCGAGAGGAATGAGAAGAAGCAGCAGATGGGCAAAGAGTACCGTGAGAAGATCGAGGCGGAGCTGCAGGACATCTGCAACGATGTGCTGGAGCTGTTGGACAAATATCTCATTCTCAATGCCACCCAGGCAGAAAGCAAAGTGTTCTACTTAAAAATGAAAGGAGACTACTTTAGGTATCTTTCTGAAGTTGCATCCGGAGAAAATAAACAAACCACGGTGTCCAACTCCCAGCAGGCTTACCAAGAAGCATTTGAAATCAGCAAGAAAGAAATGCAGCCTACACACCCGATTCGCCTCGGCCTGGCGCTGAATTTCTCAGTCTTTTACTATGAGATTCTAAACTCTCCTGAAAAGGCCTGCAGCCTGGCCAAAACGGCATTTGATGAGGCGATTGCTGAGTTGGACACCCTGAATGAAGAGTCTTACAAAGACAGCACCCTGATCATGCAGCTGCTCAGGGACAATCTCACCAAAATGACCATGGATAAGAGTGAGCTGGTACAGAAAGCCAAACTGGCTGAGCAGGCTGAGCGCTATGATGACATGGCTGCAGCTATGAAGGCCGTAACAGAGCAGGGACACGAACTCTCCAATGAAGAGAGGAATCTACTCTCTGTTGCCTACAAGAACGTGGTAGGTGCCCGCCGCTCTTCCTGGCGTGTCATCTCCAGCATCGAACAGAAAACCGAGAGGAATGAGAAGAAGCAGCAGATGGGCAAAGAGTACCGTGAGAAGATCGAGGCGGAGCTGCAGGACATCTGCAACGATGTGCTGGAGCTGTTGGACAAATATCTCATTCTCAATGCCACCCAGGCAGAAAGCAAAGTGTTCTACTTAAAAATGAAAGGAGACTACTTTAGGTATCTTTCTGAAGTTGCATCCGGAGAAAATAAACAAACCACGGTGTCCAACTCCCAGCAGGCTTACCAAGAAGCATTTGAAATCAGCAAGAAAGAAATGCAGCCTACACACCCGATTCGCCTCGGCCTGGCGCTGAATTTCTCAGTCTTTTACTATGAGATTCTAAACTCTCCTGAAAAGGCCTGCAGCCTGGCCAAAACGGCATTTGATGAGGCGATTGCTGAGTTGGACACCCTGAATGAAGAGTCTTACAAAGACAGCACCCTGATCATGCAGCTGCTCAGGGACAATCTCACC
Peptide sequence:
MTMDKSELVQKAKLAEQAERYDDMAAAMKAVTEQGHELSNEERNLLSVAYKNVVGARRSSWRVISSIEQKTERNEKKQQMGKEYREKIEAELQDICNDVLELLDKYLILNATQAESKVFYLKMKGDYFRYLSEVASGENKQTTVSNSQQAYQEAFEISKKEMQPTHPIRLGLALNFSVFYYEILNSPEKACSLAKTAFDEAIAELDTLNEESYKDSTLIMQLLRDNLTKMTMDKSELVQKAKLAEQAERYDDMAAAMKAVTEQGHELSNEERNLLSVAYKNVVGARRSSWRVISSIEQKTERNEKKQQMGKEYREKIEAELQDICNDVLELLDKYLILNATQAESKVFYLKMKGDYFRYLSEVASGENKQTTVSNSQQAYQEAFEISKKEMQPTHPIRLGLALNFSVFYYEILNSPEKACSLAKTAFDEAIAELDTLNEESYKDSTLIMQLLRDNLT
IRESfinder result
IRESfinder score
0.314892224
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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