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mmu_circRalgapb_902
Basic information of circular RNA
PanCircBase ID:
mmu_circRalgapb_902
mm39_Chr. Position ID:
chr2|158262733|158277509|+
Gene name:
Ralgapb
Transcript:
ENSMUST00000109486.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,5351,9603,11920,14644
Genomic length:
14776
Exon/intron sizes in nt:
21,62,03,16,41,87,132
Flanking exon/introns:
chr2:158252023-158262733|chr2:158277509-158278409
Splice length:
902
Other database IDs:
circAtlas: mmu-Ralgapb_0010
circBase: hsa_circ_0060337, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_34150
Human Ortholog IDs:
Mature spliced Sequence:
GTGCCATTTGGATAGTACTTTAGTGGCACAATGTACTCTGAGTGGCGGTCACTGCATTTGGTGATTCAGAGTGATCAAGGCCATACCAGTGTGCTACACAGCTATCCAGAGAGTGTTGGGCGAGAGGTGGCGAATGCAGTGGTCCGTCCTCTTGGGCAGGCATTAGGTACTTCTTCAGTGGCTGGTAGTGAGAGTTTATTAAAAACTGACAAAGAAGTAAAATGGACCATGGAAGTAATTTGCTATGGACTGACCCTTCCATTAGATGGAGAGACTGTAAAATATTGTGTTGATGTATATACAGATTGGATTATGGCTTTGGTGTTGCCAAAAGATTCTATTCCATTACCCATTATTAAAGAACCTAATCTATATGTTCAAAGTATATTAAAACATTTACAAAATCTTTTTGTACCAAGACAGGAACAGGGCTCCAGTCAAATCCGACTATGCTTACAAGTTCTGAGAGCCATTCAGAAACTGGCCCGGGAGTCATCCATCATGGCTCGAGAAACCTGGGAAGTCTTACTGTTGTTTCTTCTGCAAATTAATGACATACTTCTGGCCCCACCAACTGTTCAAGGTGGCATTGCTGAGAATCTAGCAGAGAAGCTGATTGGTGTTCTCTTTGAAGTTTGGTTACTAGCTTGCACCCGGTGCTTCCCAACACCTCCTTATTGGAAGACAGCCAAGGAGATGGTGGCTAACTGGAGGCACCACCCTGCAGTGGTGGAGCAGTGGAGCAAGGTTATCTGTGCACTGACCTCCAGATTGCTCCGCTTTACATACGGTCCTTCATTTCCTCCATTTAAAGTTCCTGATGAAGATGCCAATCTCATCCCTCCAGAAATGGACAATGAGTGTATTGCACAAACATGGTTTCGATTTTTACACATGCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAATCTCATCCCTCCAG
59.16
TGTAGCACACTGGTATGGCC
59.75
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAATCTCATCCCTCCAG
59.16
GCACACTGGTATGGCCTTGA
60.32
169
PCR template sequence:
CTCCATTTAAAGTTCCTGATGAAGATGCCAATCTCATCCCTCCAGAAATGGACAATGAGTGTATTGCACAAACATGGTTTCGATTTTTACACATGCTAAGGTGCCATTTGGATAGTACTTTAGTGGCACAATGTACTCTGAGTGGCGGTCACTGCATTTGGTGATTCAGAGTGATCAAGGCCATACCAGTGTGCTACACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-184-3p(1), mmu-miR-143-3p(1), mmu-miR-182-5p(1), mmu-miR-511-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
TACACATGCTAAGGTGCCATTTGGAT
siRNA sets
ATCCAAATGGCACCTTAGC, AATGGCACCTTAGCATGTG, CAAATGGCACCTTAGCATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRALGAPB_902_ORF_1
0.8338
-0.021005008
0.949496798
936
ORF sequence:
ATGTACTCTGAGTGGCGGTCACTGCATTTGGTGATTCAGAGTGATCAAGGCCATACCAGTGTGCTACACAGCTATCCAGAGAGTGTTGGGCGAGAGGTGGCGAATGCAGTGGTCCGTCCTCTTGGGCAGGCATTAGGTACTTCTTCAGTGGCTGGTAGTGAGAGTTTATTAAAAACTGACAAAGAAGTAAAATGGACCATGGAAGTAATTTGCTATGGACTGACCCTTCCATTAGATGGAGAGACTGTAAAATATTGTGTTGATGTATATACAGATTGGATTATGGCTTTGGTGTTGCCAAAAGATTCTATTCCATTACCCATTATTAAAGAACCTAATCTATATGTTCAAAGTATATTAAAACATTTACAAAATCTTTTTGTACCAAGACAGGAACAGGGCTCCAGTCAAATCCGACTATGCTTACAAGTTCTGAGAGCCATTCAGAAACTGGCCCGGGAGTCATCCATCATGGCTCGAGAAACCTGGGAAGTCTTACTGTTGTTTCTTCTGCAAATTAATGACATACTTCTGGCCCCACCAACTGTTCAAGGTGGCATTGCTGAGAATCTAGCAGAGAAGCTGATTGGTGTTCTCTTTGAAGTTTGGTTACTAGCTTGCACCCGGTGCTTCCCAACACCTCCTTATTGGAAGACAGCCAAGGAGATGGTGGCTAACTGGAGGCACCACCCTGCAGTGGTGGAGCAGTGGAGCAAGGTTATCTGTGCACTGACCTCCAGATTGCTCCGCTTTACATACGGTCCTTCATTTCCTCCATTTAAAGTTCCTGATGAAGATGCCAATCTCATCCCTCCAGAAATGGACAATGAGTGTATTGCACAAACATGGTTTCGATTTTTACACATGCTAAGGTGCCATTTGGATAGTACTTTAGTGGCACAATGTACTCTGAGTGGCGGTCACTGCATTTGGTGA
Peptide sequence:
MYSEWRSLHLVIQSDQGHTSVLHSYPESVGREVANAVVRPLGQALGTSSVAGSESLLKTDKEVKWTMEVICYGLTLPLDGETVKYCVDVYTDWIMALVLPKDSIPLPIIKEPNLYVQSILKHLQNLFVPRQEQGSSQIRLCLQVLRAIQKLARESSIMARETWEVLLLFLLQINDILLAPPTVQGGIAENLAEKLIGVLFEVWLLACTRCFPTPPYWKTAKEMVANWRHHPAVVEQWSKVICALTSRLLRFTYGPSFPPFKVPDEDANLIPPEMDNECIAQTWFRFLHMLRCHLDSTLVAQCTLSGGHCIW
IRESfinder result
IRESfinder score
0.705644527
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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