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mmu_circFam135a_2254
Basic information of circular RNA
PanCircBase ID:
mmu_circFam135a_2254
mm39_Chr. Position ID:
chr1|24067280|24088288|-
Gene name:
Fam135a
Transcript:
ENSMUST00000188712.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
14,13,12,11,10,9
Exon/intron offsets:
0,2542,4463,15914,18158,20930
Genomic length:
21008
Exon/intron sizes in nt:
1741,155,74,156,50,78
Flanking exon/introns:
chr1:24065849-24067280|chr1:24088288-24092263
Splice length:
2254
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCAAGGCCAGCATGCAGGTCCTATATGAGCGCCTCCTCAGAAGAACACAGCCAAGAACTCAGAACGACACGTGTCTAGAGGAAATGGATGTAGAAGCTCGTCTTACTGAACTGTGTGAAGAAGTTAAGAAAGTAGAAAACCCTGATGAACTGGCAGAACTCATCAACATGAACCTTGCACAGCTCTGCTCACTTCTCATGGCTTTATGGGGACAGTTTTTGGAAGCTATAACACTGCATGAAGATTTAAGAGTGCTGTTAGCACAGGAACACCATACTTTGAGGGTTCGCAGATTTTCGGAGGCGTTCTTTTGTTTTGAACATCCAAGAGAAGCTGCCATTGCATACCAAGAACTCCATGCTCAGAGTCATCTACAGATGTGCACCGCTATCAAAAATACTTCCTTCTGCAGTTCTCTTCCACCCCTACCTATTGAATGTAGTGAATTAGATGGAGATCTCAATTCATTACCTATAATCTTTGAAGATAGGTATTTAGATTCAGTTATTGAAGGTAAACTTGCTATATCCCAAGACAATAGTGATATTCCAGATACGGAACACAATCTGGCATCTACAAGTTCATCAAATGATTGCCATGACTATCAGACAACCCCATCTTCGGGAGTTAGAACACTTGAAGTCAAGTCCAGCAGTAAAGAGTCTTTCAATGGAGAGAAAATTACTGTTAAAATAGGACCTTGGACAGAGCTTCAAGAAGCTGAACTATTTGTGGATAATTTACTGCCAGATTTTGAGGCCTTAGACTCTAATGATAAACCCAAGTCTATAGATATACCACTTGAAAGGGATGCTTTACAGGAGACAAAATGTCATTCTACTGAAGAATCATTAACTAAATTCAGAAGTAATCTACCTGCTCCTTCTACAAAAGAATATCATGTTGCAGTAAGTAGTGACACGATTAAATTACCAGACACTAATGCCACGTATGCCTCCTCTAGATTCTCAGATTCAGGTGTTGAAAGTGAACCAAGTTCTTTTGCAACACATCCAAATCCGGAGATAGCCTTTGAGACTCTCCAAGGGCCAGGTCCTTGCAATAATGAAAGGTTATTTCCTCAGCTTTTGATGAAGCCTGATCACAATGTAAAATTTTCATTAGGAAGTCATTGCACTGAGAGCACAAGTGCTTTAAGTGAAATACAGTCATCTTTGACATCCATAAACTCCCTGCCTTCAGATGATGAACTGTCACCCGATGACAACTGTAAGAAGTCTGCTGTGCCTGACTGTCATCTAAGTGACAGTAAAACTGTATTCAATCTAGGAACAATGGATCTGCCAAAATGCGACGATACTAAAAAGTCAAGTATTATTTTGCAACAACAAAGTGTTGTTTTTTCAGGACATTTGGACAATGATACGTTAGCAATGCATTCCTTAGATTTAAGCACTGAGGACCCTTTACGGCTCGTTTTCTTGGATGAAGATGCTTCTAGTGGTGTGAGAAGTAGCTGGGGCTCCAAACCTCATTTGGATGCTCCCTTTACAGGCCCCCAGAGTCAGGGTACATCTAGTAACAACTCCACGGAATCAGTGCCAACACTAAATTCAAAACTGATTTGCTTAGGTTCTCCCTGTGTGGTCTCAGGTTCTGTTTGCACTGATGCAGGGCTCAGTGCAGATAGAACTGTGGAAGGAAAGAGCGGTGAGCCATTAAATCACAAACAAGTGTGTTCAGCAGCCCCTGTTGTGGAAAGTGACCCTCTTTCCAGCAGTACTGATGTGGTAAAACAAGGGCTGGTGGAAAATTATTTTGGATCTCAGAGCACTACAGATGTTTCTGATGCATGTGCTATTACCTGCCACAGTCCAGTTAGCTCTCAGGAAACCTGCGACAAAGGGATTAGTGATCTGCAGCAGGAACAGGGCAAAGAGGAGGAAGAGGAGGATCAAGAAATGGTTCAAAATGGGTATCATGAAGAAACAGATTTTTCAGCTACGGATGGAACAGTAAGTGTTCACTATATAAGTGGAAACGAGTTAGGAGAAGGAAGACATGAACAGTCTGAAAAACTAAGCAGCAACTATCTGAGTGCTGGTGTGACTGTTCCTGCTGTTTGTACATCTGGTTGTTTGTCCTTCCCATCTGCTCTGCGAGAGTCTCCTTGTGTTAAATATTCTTCTAGAAGTAAAGTTGATGCCATTACAAAGCAACCAAGCAGCATTTCTTACAACTTCAGTTCTTCAACCTCCTGGTATGAAAATTCACCAAAACCTCAAATACACGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAAGCAACCAAGCAGCAT
59.25
ACACGTGTCGTTCTGAGTTCT
59.6
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAAGCAACCAAGCAGCAT
59.25
TCGTTCTGAGTTCTTGGCTGT
59.59
150
PCR template sequence:
GTAAAGTTGATGCCATTACAAAGCAACCAAGCAGCATTTCTTACAACTTCAGTTCTTCAACCTCCTGGTATGAAAATTCACCAAAACCTCAAATACACGCCCAAGGCCAGCATGCAGGTCCTATATGAGCGCCTCCTCAGAAGAACACAGCCAAGAACTCAGAACGACACGTGTCTAGAGGAAATGGATGTAGAAGCTCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
28
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(2), mmu-miR-181a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-33-5p(1), mmu-miR-130a-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-132-3p(1), mmu-miR-320-3p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-434-3p(1), mmu-miR-127-5p(1), mmu-miR-212-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-340-5p(1), mmu-miR-301a-3p(1), mmu-miR-384-3p(1), mmu-miR-1198-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-369-3p(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCAAATACACGCCCAAGGCCAGCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM135A_2254_ORF_1
1.0013
-0.002875782
0.9999985
2343
ORF sequence:
ATGCCATTACAAAGCAACCAAGCAGCATTTCTTACAACTTCAGTTCTTCAACCTCCTGGTATGAAAATTCACCAAAACCTCAAATACACGCCCAAGGCCAGCATGCAGGTCCTATATGAGCGCCTCCTCAGAAGAACACAGCCAAGAACTCAGAACGACACGTGTCTAGAGGAAATGGATGTAGAAGCTCGTCTTACTGAACTGTGTGAAGAAGTTAAGAAAGTAGAAAACCCTGATGAACTGGCAGAACTCATCAACATGAACCTTGCACAGCTCTGCTCACTTCTCATGGCTTTATGGGGACAGTTTTTGGAAGCTATAACACTGCATGAAGATTTAAGAGTGCTGTTAGCACAGGAACACCATACTTTGAGGGTTCGCAGATTTTCGGAGGCGTTCTTTTGTTTTGAACATCCAAGAGAAGCTGCCATTGCATACCAAGAACTCCATGCTCAGAGTCATCTACAGATGTGCACCGCTATCAAAAATACTTCCTTCTGCAGTTCTCTTCCACCCCTACCTATTGAATGTAGTGAATTAGATGGAGATCTCAATTCATTACCTATAATCTTTGAAGATAGGTATTTAGATTCAGTTATTGAAGGTAAACTTGCTATATCCCAAGACAATAGTGATATTCCAGATACGGAACACAATCTGGCATCTACAAGTTCATCAAATGATTGCCATGACTATCAGACAACCCCATCTTCGGGAGTTAGAACACTTGAAGTCAAGTCCAGCAGTAAAGAGTCTTTCAATGGAGAGAAAATTACTGTTAAAATAGGACCTTGGACAGAGCTTCAAGAAGCTGAACTATTTGTGGATAATTTACTGCCAGATTTTGAGGCCTTAGACTCTAATGATAAACCCAAGTCTATAGATATACCACTTGAAAGGGATGCTTTACAGGAGACAAAATGTCATTCTACTGAAGAATCATTAACTAAATTCAGAAGTAATCTACCTGCTCCTTCTACAAAAGAATATCATGTTGCAGTAAGTAGTGACACGATTAAATTACCAGACACTAATGCCACGTATGCCTCCTCTAGATTCTCAGATTCAGGTGTTGAAAGTGAACCAAGTTCTTTTGCAACACATCCAAATCCGGAGATAGCCTTTGAGACTCTCCAAGGGCCAGGTCCTTGCAATAATGAAAGGTTATTTCCTCAGCTTTTGATGAAGCCTGATCACAATGTAAAATTTTCATTAGGAAGTCATTGCACTGAGAGCACAAGTGCTTTAAGTGAAATACAGTCATCTTTGACATCCATAAACTCCCTGCCTTCAGATGATGAACTGTCACCCGATGACAACTGTAAGAAGTCTGCTGTGCCTGACTGTCATCTAAGTGACAGTAAAACTGTATTCAATCTAGGAACAATGGATCTGCCAAAATGCGACGATACTAAAAAGTCAAGTATTATTTTGCAACAACAAAGTGTTGTTTTTTCAGGACATTTGGACAATGATACGTTAGCAATGCATTCCTTAGATTTAAGCACTGAGGACCCTTTACGGCTCGTTTTCTTGGATGAAGATGCTTCTAGTGGTGTGAGAAGTAGCTGGGGCTCCAAACCTCATTTGGATGCTCCCTTTACAGGCCCCCAGAGTCAGGGTACATCTAGTAACAACTCCACGGAATCAGTGCCAACACTAAATTCAAAACTGATTTGCTTAGGTTCTCCCTGTGTGGTCTCAGGTTCTGTTTGCACTGATGCAGGGCTCAGTGCAGATAGAACTGTGGAAGGAAAGAGCGGTGAGCCATTAAATCACAAACAAGTGTGTTCAGCAGCCCCTGTTGTGGAAAGTGACCCTCTTTCCAGCAGTACTGATGTGGTAAAACAAGGGCTGGTGGAAAATTATTTTGGATCTCAGAGCACTACAGATGTTTCTGATGCATGTGCTATTACCTGCCACAGTCCAGTTAGCTCTCAGGAAACCTGCGACAAAGGGATTAGTGATCTGCAGCAGGAACAGGGCAAAGAGGAGGAAGAGGAGGATCAAGAAATGGTTCAAAATGGGTATCATGAAGAAACAGATTTTTCAGCTACGGATGGAACAGTAAGTGTTCACTATATAAGTGGAAACGAGTTAGGAGAAGGAAGACATGAACAGTCTGAAAAACTAAGCAGCAACTATCTGAGTGCTGGTGTGACTGTTCCTGCTGTTTGTACATCTGGTTGTTTGTCCTTCCCATCTGCTCTGCGAGAGTCTCCTTGTGTTAAATATTCTTCTAGAAGTAAAGTTGATGCCATTACAAAGCAACCAAGCAGCATTTCTTACAACTTCAGTTCTTCAACCTCCTGGTATGAAAATTCACCAAAACCTCAAATACAC
Peptide sequence:
MPLQSNQAAFLTTSVLQPPGMKIHQNLKYTPKASMQVLYERLLRRTQPRTQNDTCLEEMDVEARLTELCEEVKKVENPDELAELINMNLAQLCSLLMALWGQFLEAITLHEDLRVLLAQEHHTLRVRRFSEAFFCFEHPREAAIAYQELHAQSHLQMCTAIKNTSFCSSLPPLPIECSELDGDLNSLPIIFEDRYLDSVIEGKLAISQDNSDIPDTEHNLASTSSSNDCHDYQTTPSSGVRTLEVKSSSKESFNGEKITVKIGPWTELQEAELFVDNLLPDFEALDSNDKPKSIDIPLERDALQETKCHSTEESLTKFRSNLPAPSTKEYHVAVSSDTIKLPDTNATYASSRFSDSGVESEPSSFATHPNPEIAFETLQGPGPCNNERLFPQLLMKPDHNVKFSLGSHCTESTSALSEIQSSLTSINSLPSDDELSPDDNCKKSAVPDCHLSDSKTVFNLGTMDLPKCDDTKKSSIILQQQSVVFSGHLDNDTLAMHSLDLSTEDPLRLVFLDEDASSGVRSSWGSKPHLDAPFTGPQSQGTSSNNSTESVPTLNSKLICLGSPCVVSGSVCTDAGLSADRTVEGKSGEPLNHKQVCSAAPVVESDPLSSSTDVVKQGLVENYFGSQSTTDVSDACAITCHSPVSSQETCDKGISDLQQEQGKEEEEEDQEMVQNGYHEETDFSATDGTVSVHYISGNELGEGRHEQSEKLSSNYLSAGVTVPAVCTSGCLSFPSALRESPCVKYSSRSKVDAITKQPSSISYNFSSSTSWYENSPKPQIH
IRESfinder result
IRESfinder score
0.685618861
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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