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mmu_circSlmap_944
Basic information of circular RNA
PanCircBase ID:
mmu_circSlmap_944
mm39_Chr. Position ID:
chr14|26139267|26151065|-
Gene name:
Slmap
Transcript:
ENSMUST00000102956.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
22,21,20,19,18,17
Exon/intron offsets:
0,4308,8452,9122,10129,11675
Genomic length:
11798
Exon/intron sizes in nt:
135,172,118,321,75,123
Flanking exon/introns:
chr14:26137447-26139267|chr14:26151065-26159833
Splice length:
944
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14764, circAtlas: mmu-Slmap_0008
circBase: hsa_circ_0124370, circAtlas: hsa-SLMAP_0012, CIRCpedia: HSA_CIRCpedia_105060
Human Ortholog IDs:
Mature spliced Sequence:
ATGACTTACAGGGTACCCAGTCAGAAACTGAGGCCAAACAAGACATTCAGCATCTTCGCAAAGAATTGGTGGAAGCCCAGGAGCTAGCTAGAACAAGTAAACAAAAATGCTTTGAACTTCAAGCTCTTTTGGAAGAAGAACGAAAAGCCTATCGAAATCAAGTTGAAGAATCAGCTAAACAAATACAGGTTCTTCAAGTCCAGCTGCAGAAGTTACACATGGACATGGAGAATCTCCAGGAGGAAAAGGACACGGAAATCTCCAGCACAAGAGATAAATTGCTTAGTGCCCAAGATGAGATTTTGCTCCTTCGTCAAGCAGCAGCAGAGGCTGTGTCTGAGCGGGACACTGACTTTGTTTCTTTGCAAGAAGAGCTTAAGAAGGTCAGAGCGGAGCTTGAGGGCTGGAGGAAAGCAGCGTCTGAATACGAGAATGAAATCAGAAGTCTGCAGAGCAGCTTCCAGCTTAGATGTCAGCAGTGTGAAGACCAGCAAAGGGAGGAGGCAACAAGGTTGCAAGGTGAGCTGGAGAAGTTGAAGAAGGAGTGGGATGTACTGGAAACGGAATGCCATTCTCTAAAAAAGGAGAACGTGTTGTTGTCTTCAGAACTGCAGCGACAAGAGAAAGAATTGCACAATTCTCAGAAGCAGAGTTTTGAACTCACGAGTGACCTCAGCATCCTTCAGATGACTAGGAAAGAGCTGGAGAAGCAAGTGGGATCCTTGAAAGAACAACACCTTCGGGATGCAGCTGACCTAAAAACTCTCCTCAGTAAGGCTGAAAACCAAGCAAAGGATGTACAGAAAGAGTATGAAAAGACACAGACTGTTCTCTCAGAACTGAAGTTGAAGTTTGAAATGACTGAGCAGGAAAAGCAATCAATCACAGATGAGCTCAAACAGTGTAAAGACAACCTGAAGCTGCTGCGAGAGAAAGGAAATAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACTGAGCAGGAAAAGCAA
57.65
TCCTGGGCTTCCACCAATTC
59.96
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACTGAGCAGGAAAAGCAA
57.65
CCTGGGCTTCCACCAATTCT
59.96
167
PCR template sequence:
GTTGAAGTTTGAAATGACTGAGCAGGAAAAGCAATCAATCACAGATGAGCTCAAACAGTGTAAAGACAACCTGAAGCTGCTGCGAGAGAAAGGAAATAATATGACTTACAGGGTACCCAGTCAGAAACTGAGGCCAAACAAGACATTCAGCATCTTCGCAAAGAATTGGTGGAAGCCCAGGAGCTAGCTAGAACAAGTAA
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-207(2), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-216a-5p(1), mmu-miR-324-5p(1), mmu-miR-10a-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAGGAAATAATATGACTTACAGGG
siRNA sets
TAAGTCATATTATTTCCTT, TGTAAGTCATATTATTTCC, GTAAGTCATATTATTTCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLMAP_944_ORF_1
1.0461
0.28453401
0.975597029
813
ORF sequence:
ATGGACATGGAGAATCTCCAGGAGGAAAAGGACACGGAAATCTCCAGCACAAGAGATAAATTGCTTAGTGCCCAAGATGAGATTTTGCTCCTTCGTCAAGCAGCAGCAGAGGCTGTGTCTGAGCGGGACACTGACTTTGTTTCTTTGCAAGAAGAGCTTAAGAAGGTCAGAGCGGAGCTTGAGGGCTGGAGGAAAGCAGCGTCTGAATACGAGAATGAAATCAGAAGTCTGCAGAGCAGCTTCCAGCTTAGATGTCAGCAGTGTGAAGACCAGCAAAGGGAGGAGGCAACAAGGTTGCAAGGTGAGCTGGAGAAGTTGAAGAAGGAGTGGGATGTACTGGAAACGGAATGCCATTCTCTAAAAAAGGAGAACGTGTTGTTGTCTTCAGAACTGCAGCGACAAGAGAAAGAATTGCACAATTCTCAGAAGCAGAGTTTTGAACTCACGAGTGACCTCAGCATCCTTCAGATGACTAGGAAAGAGCTGGAGAAGCAAGTGGGATCCTTGAAAGAACAACACCTTCGGGATGCAGCTGACCTAAAAACTCTCCTCAGTAAGGCTGAAAACCAAGCAAAGGATGTACAGAAAGAGTATGAAAAGACACAGACTGTTCTCTCAGAACTGAAGTTGAAGTTTGAAATGACTGAGCAGGAAAAGCAATCAATCACAGATGAGCTCAAACAGTGTAAAGACAACCTGAAGCTGCTGCGAGAGAAAGGAAATAATATGACTTACAGGGTACCCAGTCAGAAACTGAGGCCAAACAAGACATTCAGCATCTTCGCAAAGAATTGGTGGAAGCCCAGGAGCTAG
Peptide sequence:
MDMENLQEEKDTEISSTRDKLLSAQDEILLLRQAAAEAVSERDTDFVSLQEELKKVRAELEGWRKAASEYENEIRSLQSSFQLRCQQCEDQQREEATRLQGELEKLKKEWDVLETECHSLKKENVLLSSELQRQEKELHNSQKQSFELTSDLSILQMTRKELEKQVGSLKEQHLRDAADLKTLLSKAENQAKDVQKEYEKTQTVLSELKLKFEMTEQEKQSITDELKQCKDNLKLLREKGNNMTYRVPSQKLRPNKTFSIFAKNWWKPRS
IRESfinder result
IRESfinder score
0.421974809
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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