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mmu_circSpecc1_763
Basic information of circular RNA
PanCircBase ID:
mmu_circSpecc1_763
mm39_Chr. Position ID:
chr11|62037131|62102529|+
Gene name:
Specc1
Transcript:
ENSMUST00000202389.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,9,10,11,12,13,14
Exon/intron offsets:
0,1262,5564,10181,15502,59078,65338
Genomic length:
65398
Exon/intron sizes in nt:
146,101,82,154,103,117,60
Flanking exon/introns:
chr11:62023307-62037131|chr11:62102529-62110110
Splice length:
763
Other database IDs:
circAtlas: mmu-Specc1_0003
circBase: hsa_circ_0042435, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_19704
Human Ortholog IDs:
Mature spliced Sequence:
ACCTGTGAATGAAGAGCCAGAGCCCTCAGAGGCCGATGCTGCTGGCCGGTGGCGTGGAGTCTATGTCAACAGAACATCTCCAGCTCCTTCAGACTCTGCAACCACAGTAAAGTCACTGATCAAATCATTTGACTTAGGACACTCAGGTGGAACTGGCCAGAGTATTTCTGTCCACAAGACTCCCAGAAGCCCCCTGAGTGGAATCCCAGTGAGGACTGCTCCTGCCGCTGCTGTCTCTCCGATGCAGAGACATTCAACATACAGCAGCATGAAGCCAGCCAGCAAAGGGACGTCTCAGCGCTTGGATCTGCCGGACCTTCCCCTCTCTGATCTGCTGAAGGGAAGGGCCGAGGACCGGAAGTCAGACCCTTACCTCCGAAAGAGTCCCTCACTGGAGTCCCTGAGCAGACCCCCCTCCCTGGGCTTTGGGAACACCAGACTGCTGAGTGCGTCCACCGGGGGTCTGAAGCCAAGCAAGCTCAGTGTTGAAAGAAGAGACCCTCTGGCAGCCCTGGCCCGGGAGTATGGTGGCTCTAAGCGTAACGCACTCCTGAAATGGTGTCAGAAGAAGACAGAAGGTTATGCGAACATTGATATCACCAATTTCAGCAGCAGCTGGAGTGATGGGCTGGCCCTCTGTGCTCTGCTGCACACCTACCTGCCTGCCCACATCCCATACCAGGAATTGAACAGTCAGGAGAAAAAAAGGAATCTCCTGTTGGCATTTGAAGCCGCGCAGAGTGTAGGCATCAACCCCAGCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCACATCCCATACCAGG
59.85
GACATAGACTCCACGCCACC
60.18
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATTTGAAGCCGCGCAGAG
60.23
GCAGAGTCTGAAGGAGCTGG
60.11
140
PCR template sequence:
TGCCCACATCCCATACCAGGAATTGAACAGTCAGGAGAAAAAAAGGAATCTCCTGTTGGCATTTGAAGCCGCGCAGAGTGTAGGCATCAACCCCAGCCTGACCTGTGAATGAAGAGCCAGAGCCCTCAGAGGCCGATGCTGCTGGCCGGTGGCGTGGAGTCTATGTCAACAGAACATCTCCAGCTCCTTCAGACTCTGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-185-5p(1), mmu-miR-214-3p(1), mmu-miR-503-5p(1), mmu-miR-149-5p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-383-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACCCCAGCCTGACCTGTGAATGAA
siRNA sets
TTCATTCACAGGTCAGGCT, TCATTCACAGGTCAGGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPECC1_763_ORF_1
0.834
0.300235561
0.79465115
534
ORF sequence:
ATGCAGAGACATTCAACATACAGCAGCATGAAGCCAGCCAGCAAAGGGACGTCTCAGCGCTTGGATCTGCCGGACCTTCCCCTCTCTGATCTGCTGAAGGGAAGGGCCGAGGACCGGAAGTCAGACCCTTACCTCCGAAAGAGTCCCTCACTGGAGTCCCTGAGCAGACCCCCCTCCCTGGGCTTTGGGAACACCAGACTGCTGAGTGCGTCCACCGGGGGTCTGAAGCCAAGCAAGCTCAGTGTTGAAAGAAGAGACCCTCTGGCAGCCCTGGCCCGGGAGTATGGTGGCTCTAAGCGTAACGCACTCCTGAAATGGTGTCAGAAGAAGACAGAAGGTTATGCGAACATTGATATCACCAATTTCAGCAGCAGCTGGAGTGATGGGCTGGCCCTCTGTGCTCTGCTGCACACCTACCTGCCTGCCCACATCCCATACCAGGAATTGAACAGTCAGGAGAAAAAAAGGAATCTCCTGTTGGCATTTGAAGCCGCGCAGAGTGTAGGCATCAACCCCAGCCTGACCTGTGAATGA
Peptide sequence:
MQRHSTYSSMKPASKGTSQRLDLPDLPLSDLLKGRAEDRKSDPYLRKSPSLESLSRPPSLGFGNTRLLSASTGGLKPSKLSVERRDPLAALAREYGGSKRNALLKWCQKKTEGYANIDITNFSSSWSDGLALCALLHTYLPAHIPYQELNSQEKKRNLLLAFEAAQSVGINPSLTCE
IRESfinder result
IRESfinder score
0.547781112
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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