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mmu_circ4932438A13Rik_930
Basic information of circular RNA
PanCircBase ID:
mmu_circ4932438A13Rik_930
mm39_Chr. Position ID:
chr3|36939505|36950033|+
Gene name:
4932438A13Rik
Transcript:
ENSMUST00000057272.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
7,8,9,10,11,12,13
Exon/intron offsets:
0,1862,2318,4466,5438,9902,10449
Genomic length:
10528
Exon/intron sizes in nt:
187,82,194,80,151,157,79
Flanking exon/introns:
chr3:36931887-36939505|chr3:36950033-36960839
Splice length:
930
Other database IDs:
circAtlas: mmu-4932438A13Rik_0010
Human Ortholog IDs:
Mature spliced Sequence:
ATCCAAAGGCAGAAACCAGATTATATATCACAGTTAATGACTTTGAATTTCATGTCTACAATCGGTCTGATCTTTATGGACGCCTTCAAGAATTGTTTGGTTTGGAACCAACTATAATTCCACCCAAGAAAGATGATGATAAAACCCGGGAAAATGGGAGAACAAGAACGCAGTCCAAAATTGAAAGAGTTAAAGTAAAAACAGAATCTCAAGACCCCACATCTTCATGGAGATCACTTATCCCAGTCATTAAGGTCAATGTGAGCACAGGACGTTTGGCCTTTGGGAATCATTATCAACCTCAGACTCTATGCATCAACTTTGATGATGCGTTCTTAACGTATACTACAAAACCACCTTCAAGTCATCTTGACCAGTTCATGCACATTGTGAAAGGAAAGCTTGAAAATGTTCGAGTCATGCTTGTTCCTAGTCCAAGATATGTTGGCCTACAAAATGATGAACCCCCGAGACTGATGGGAGAAGGGTTTGTGGTGCTGCAGTCAAATGATGTTGATCTCTACTATTACATGGATGAGCCAGGACTTGTTCCAGAAGAAACAGAAGAGAGTACAGAAGGGGACATAAGCAGTGAAGACTGTAAATTACAAGACTTACCTCCATGCTGGGGGCTAGACATCGTTTGTGGTAAAGGGACAGACTTTAACTATGGACCCTGGGCTGACAGGCAGAGAGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGAAAGTCTCTGAGATTGCACAGCCTGGAAGACCAAGACAAATCCTTGCATTTGAACTCCGAATGAATATTATTACAGATGCTACCATTGACTTGCTGTTTACCAAAAACAGGGAAACAAATGCTGTGCATGTAAATGTAGGGGCTGGCTCATATTTAGAAATTAATATTCCGATGACAGTTGACGAAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAATGTAGGGGCTGGCTCAT
59.07
AGGCGTCCATAAAGATCAGACC
59.9
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAATGTAGGGGCTGGCTCAT
59.07
GCGTCCATAAAGATCAGACCG
58.87
142
PCR template sequence:
TTGCTGTTTACCAAAAACAGGGAAACAAATGCTGTGCATGTAAATGTAGGGGCTGGCTCATATTTAGAAATTAATATTCCGATGACAGTTGACGAAAATGATCCAAAGGCAGAAACCAGATTATATATCACAGTTAATGACTTTGAATTTCATGTCTACAATCGGTCTGATCTTTATGGACGCCTTCAAGAATTGTTTGG
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-23b-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-23a-3p(1), mmu-miR-676-3p(1), mmu-miR-383-5p(1), mmu-miR-207(1), mmu-miR-3105-3p(1), mmu-miR-338-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGACGAAAATGATCCAAAGGCAGA
siRNA sets
TTTGGATCATTTTCGTCAA, CTTTGGATCATTTTCGTCA, TTGGATCATTTTCGTCAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4932438A13RIK_930_ORF_1
0.9557
0.046112116
0.999359208
1479
ORF sequence:
ATGCACATTGTGAAAGGAAAGCTTGAAAATGTTCGAGTCATGCTTGTTCCTAGTCCAAGATATGTTGGCCTACAAAATGATGAACCCCCGAGACTGATGGGAGAAGGGTTTGTGGTGCTGCAGTCAAATGATGTTGATCTCTACTATTACATGGATGAGCCAGGACTTGTTCCAGAAGAAACAGAAGAGAGTACAGAAGGGGACATAAGCAGTGAAGACTGTAAATTACAAGACTTACCTCCATGCTGGGGGCTAGACATCGTTTGTGGTAAAGGGACAGACTTTAACTATGGACCCTGGGCTGACAGGCAGAGAGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGAAAGTCTCTGAGATTGCACAGCCTGGAAGACCAAGACAAATCCTTGCATTTGAACTCCGAATGAATATTATTACAGATGCTACCATTGACTTGCTGTTTACCAAAAACAGGGAAACAAATGCTGTGCATGTAAATGTAGGGGCTGGCTCATATTTAGAAATTAATATTCCGATGACAGTTGACGAAAATGATCCAAAGGCAGAAACCAGATTATATATCACAGTTAATGACTTTGAATTTCATGTCTACAATCGGTCTGATCTTTATGGACGCCTTCAAGAATTGTTTGGTTTGGAACCAACTATAATTCCACCCAAGAAAGATGATGATAAAACCCGGGAAAATGGGAGAACAAGAACGCAGTCCAAAATTGAAAGAGTTAAAGTAAAAACAGAATCTCAAGACCCCACATCTTCATGGAGATCACTTATCCCAGTCATTAAGGTCAATGTGAGCACAGGACGTTTGGCCTTTGGGAATCATTATCAACCTCAGACTCTATGCATCAACTTTGATGATGCGTTCTTAACGTATACTACAAAACCACCTTCAAGTCATCTTGACCAGTTCATGCACATTGTGAAAGGAAAGCTTGAAAATGTTCGAGTCATGCTTGTTCCTAGTCCAAGATATGTTGGCCTACAAAATGATGAACCCCCGAGACTGATGGGAGAAGGGTTTGTGGTGCTGCAGTCAAATGATGTTGATCTCTACTATTACATGGATGAGCCAGGACTTGTTCCAGAAGAAACAGAAGAGAGTACAGAAGGGGACATAAGCAGTGAAGACTGTAAATTACAAGACTTACCTCCATGCTGGGGGCTAGACATCGTTTGTGGTAAAGGGACAGACTTTAACTATGGACCCTGGGCTGACAGGCAGAGAGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGAAAGTCTCTGAGATTGCACAGCCTGGAAGACCAAGACAAATCCTTGCATTTGAACTCCGAATGAATATTATTACAGATGCTACCATTGACTTGCTGTTTACCAAAAACAGGGAAACAAATGCTGTGCATGTAAATGTAGGGGCTGGCTCATATTTAGAAATTAATATTCCGATGACAGTTGACGAAAAT
Peptide sequence:
MHIVKGKLENVRVMLVPSPRYVGLQNDEPPRLMGEGFVVLQSNDVDLYYYMDEPGLVPEETEESTEGDISSEDCKLQDLPPCWGLDIVCGKGTDFNYGPWADRQRDCLWKFFFPPDYQVLKVSEIAQPGRPRQILAFELRMNIITDATIDLLFTKNRETNAVHVNVGAGSYLEINIPMTVDENDPKAETRLYITVNDFEFHVYNRSDLYGRLQELFGLEPTIIPPKKDDDKTRENGRTRTQSKIERVKVKTESQDPTSSWRSLIPVIKVNVSTGRLAFGNHYQPQTLCINFDDAFLTYTTKPPSSHLDQFMHIVKGKLENVRVMLVPSPRYVGLQNDEPPRLMGEGFVVLQSNDVDLYYYMDEPGLVPEETEESTEGDISSEDCKLQDLPPCWGLDIVCGKGTDFNYGPWADRQRDCLWKFFFPPDYQVLKVSEIAQPGRPRQILAFELRMNIITDATIDLLFTKNRETNAVHVNVGAGSYLEINIPMTVDEN
IRESfinder result
IRESfinder score
0.708300747
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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