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mmu_circFam135a_2696
Basic information of circular RNA
PanCircBase ID:
mmu_circFam135a_2696
mm39_Chr. Position ID:
chr1|24065688|24093211|-
Gene name:
Fam135a
Transcript:
ENSMUST00000188712.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,1592,4134,6055,17506,19750,22522,26575,27396
Genomic length:
27523
Exon/intron sizes in nt:
16,11,74,11,55,74,15,60,00,00,00,000
Flanking exon/introns:
chr1:24063954-24065688|chr1:24093211-24094824
Splice length:
2696
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTTTCCTCGCCCTGTGAAGACCACTTGGTTAAATAGAAATGCGCCAGCACAGAGCAAAGACTCGGCGATTCCGACTCTGGAAAGTGTAGTCTTTGGTATTAACTACACAAAACAGTTATCACCAGATGGCTGTAGCTTCCTCATTGCAGAGTCCTTCCTGCACCATGCCTATCATTTTCATTATACACTTTGTGCTACTTTGCTGCTAGCCTTCAAGGGATTGCACAGCTACTTCATTACGGTAACAGAAGAGATTCCCTCTTGTCAGAAACTAGACCTGGCCAAGGCCAGCATGCAGGTCCTATATGAGCGCCTCCTCAGAAGAACACAGCCAAGAACTCAGAACGACACGTGTCTAGAGGAAATGGATGTAGAAGCTCGTCTTACTGAACTGTGTGAAGAAGTTAAGAAAGTAGAAAACCCTGATGAACTGGCAGAACTCATCAACATGAACCTTGCACAGCTCTGCTCACTTCTCATGGCTTTATGGGGACAGTTTTTGGAAGCTATAACACTGCATGAAGATTTAAGAGTGCTGTTAGCACAGGAACACCATACTTTGAGGGTTCGCAGATTTTCGGAGGCGTTCTTTTGTTTTGAACATCCAAGAGAAGCTGCCATTGCATACCAAGAACTCCATGCTCAGAGTCATCTACAGATGTGCACCGCTATCAAAAATACTTCCTTCTGCAGTTCTCTTCCACCCCTACCTATTGAATGTAGTGAATTAGATGGAGATCTCAATTCATTACCTATAATCTTTGAAGATAGGTATTTAGATTCAGTTATTGAAGGTAAACTTGCTATATCCCAAGACAATAGTGATATTCCAGATACGGAACACAATCTGGCATCTACAAGTTCATCAAATGATTGCCATGACTATCAGACAACCCCATCTTCGGGAGTTAGAACACTTGAAGTCAAGTCCAGCAGTAAAGAGTCTTTCAATGGAGAGAAAATTACTGTTAAAATAGGACCTTGGACAGAGCTTCAAGAAGCTGAACTATTTGTGGATAATTTACTGCCAGATTTTGAGGCCTTAGACTCTAATGATAAACCCAAGTCTATAGATATACCACTTGAAAGGGATGCTTTACAGGAGACAAAATGTCATTCTACTGAAGAATCATTAACTAAATTCAGAAGTAATCTACCTGCTCCTTCTACAAAAGAATATCATGTTGCAGTAAGTAGTGACACGATTAAATTACCAGACACTAATGCCACGTATGCCTCCTCTAGATTCTCAGATTCAGGTGTTGAAAGTGAACCAAGTTCTTTTGCAACACATCCAAATCCGGAGATAGCCTTTGAGACTCTCCAAGGGCCAGGTCCTTGCAATAATGAAAGGTTATTTCCTCAGCTTTTGATGAAGCCTGATCACAATGTAAAATTTTCATTAGGAAGTCATTGCACTGAGAGCACAAGTGCTTTAAGTGAAATACAGTCATCTTTGACATCCATAAACTCCCTGCCTTCAGATGATGAACTGTCACCCGATGACAACTGTAAGAAGTCTGCTGTGCCTGACTGTCATCTAAGTGACAGTAAAACTGTATTCAATCTAGGAACAATGGATCTGCCAAAATGCGACGATACTAAAAAGTCAAGTATTATTTTGCAACAACAAAGTGTTGTTTTTTCAGGACATTTGGACAATGATACGTTAGCAATGCATTCCTTAGATTTAAGCACTGAGGACCCTTTACGGCTCGTTTTCTTGGATGAAGATGCTTCTAGTGGTGTGAGAAGTAGCTGGGGCTCCAAACCTCATTTGGATGCTCCCTTTACAGGCCCCCAGAGTCAGGGTACATCTAGTAACAACTCCACGGAATCAGTGCCAACACTAAATTCAAAACTGATTTGCTTAGGTTCTCCCTGTGTGGTCTCAGGTTCTGTTTGCACTGATGCAGGGCTCAGTGCAGATAGAACTGTGGAAGGAAAGAGCGGTGAGCCATTAAATCACAAACAAGTGTGTTCAGCAGCCCCTGTTGTGGAAAGTGACCCTCTTTCCAGCAGTACTGATGTGGTAAAACAAGGGCTGGTGGAAAATTATTTTGGATCTCAGAGCACTACAGATGTTTCTGATGCATGTGCTATTACCTGCCACAGTCCAGTTAGCTCTCAGGAAACCTGCGACAAAGGGATTAGTGATCTGCAGCAGGAACAGGGCAAAGAGGAGGAAGAGGAGGATCAAGAAATGGTTCAAAATGGGTATCATGAAGAAACAGATTTTTCAGCTACGGATGGAACAGTAAGTGTTCACTATATAAGTGGAAACGAGTTAGGAGAAGGAAGACATGAACAGTCTGAAAAACTAAGCAGCAACTATCTGAGTGCTGGTGTGACTGTTCCTGCTGTTTGTACATCTGGTTGTTTGTCCTTCCCATCTGCTCTGCGAGAGTCTCCTTGTGTTAAATATTCTTCTAGAAGTAAAGTTGATGCCATTACAAAGCAACCAAGCAGCATTTCTTACAACTTCAGTTCTTCAACCTCCTGGTATGAAAATTCACCAAAACCTCAAATACACGCCTTCCTTCAGGCAAAAGAAGAGCTGAAGCAACTCAGACTGCCTGGTTTCATGTACAGTGATGTTCCTCTGCTGGCATCCTCAGCACCGTACTTCAGCATGGACGAAGAGGACGGCTCTGAGGACGGCGTGCATCTCATTGTCTGTGTCCATGGTCTAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGCACCGTACTTCAGCA
60.04
TTTCCAGAGTCGGAATCGCC
60.11
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCCTCAGCACCGTACTT
60.11
TTTCCAGAGTCGGAATCGCC
60.11
171
PCR template sequence:
GTTCCTCTGCTGGCATCCTCAGCACCGTACTTCAGCATGGACGAAGAGGACGGCTCTGAGGACGGCGTGCATCTCATTGTCTGTGTCCATGGTCTAGATGCTTTCCTCGCCCTGTGAAGACCACTTGGTTAAATAGAAATGCGCCAGCACAGAGCAAAGACTCGGCGATTCCGACTCTGGAAAGTGTAGTCTTTGGTATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
29
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-298-5p(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
CATGGTCTAGATGCTTTCCTCGCCCT
siRNA sets
CGAGGAAAGCATCTAGACC, GAGGAAAGCATCTAGACCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM135A_2696_ORF_1
0.9728
0.020586563
0.999999164
2421
ORF sequence:
ATGCAGGTCCTATATGAGCGCCTCCTCAGAAGAACACAGCCAAGAACTCAGAACGACACGTGTCTAGAGGAAATGGATGTAGAAGCTCGTCTTACTGAACTGTGTGAAGAAGTTAAGAAAGTAGAAAACCCTGATGAACTGGCAGAACTCATCAACATGAACCTTGCACAGCTCTGCTCACTTCTCATGGCTTTATGGGGACAGTTTTTGGAAGCTATAACACTGCATGAAGATTTAAGAGTGCTGTTAGCACAGGAACACCATACTTTGAGGGTTCGCAGATTTTCGGAGGCGTTCTTTTGTTTTGAACATCCAAGAGAAGCTGCCATTGCATACCAAGAACTCCATGCTCAGAGTCATCTACAGATGTGCACCGCTATCAAAAATACTTCCTTCTGCAGTTCTCTTCCACCCCTACCTATTGAATGTAGTGAATTAGATGGAGATCTCAATTCATTACCTATAATCTTTGAAGATAGGTATTTAGATTCAGTTATTGAAGGTAAACTTGCTATATCCCAAGACAATAGTGATATTCCAGATACGGAACACAATCTGGCATCTACAAGTTCATCAAATGATTGCCATGACTATCAGACAACCCCATCTTCGGGAGTTAGAACACTTGAAGTCAAGTCCAGCAGTAAAGAGTCTTTCAATGGAGAGAAAATTACTGTTAAAATAGGACCTTGGACAGAGCTTCAAGAAGCTGAACTATTTGTGGATAATTTACTGCCAGATTTTGAGGCCTTAGACTCTAATGATAAACCCAAGTCTATAGATATACCACTTGAAAGGGATGCTTTACAGGAGACAAAATGTCATTCTACTGAAGAATCATTAACTAAATTCAGAAGTAATCTACCTGCTCCTTCTACAAAAGAATATCATGTTGCAGTAAGTAGTGACACGATTAAATTACCAGACACTAATGCCACGTATGCCTCCTCTAGATTCTCAGATTCAGGTGTTGAAAGTGAACCAAGTTCTTTTGCAACACATCCAAATCCGGAGATAGCCTTTGAGACTCTCCAAGGGCCAGGTCCTTGCAATAATGAAAGGTTATTTCCTCAGCTTTTGATGAAGCCTGATCACAATGTAAAATTTTCATTAGGAAGTCATTGCACTGAGAGCACAAGTGCTTTAAGTGAAATACAGTCATCTTTGACATCCATAAACTCCCTGCCTTCAGATGATGAACTGTCACCCGATGACAACTGTAAGAAGTCTGCTGTGCCTGACTGTCATCTAAGTGACAGTAAAACTGTATTCAATCTAGGAACAATGGATCTGCCAAAATGCGACGATACTAAAAAGTCAAGTATTATTTTGCAACAACAAAGTGTTGTTTTTTCAGGACATTTGGACAATGATACGTTAGCAATGCATTCCTTAGATTTAAGCACTGAGGACCCTTTACGGCTCGTTTTCTTGGATGAAGATGCTTCTAGTGGTGTGAGAAGTAGCTGGGGCTCCAAACCTCATTTGGATGCTCCCTTTACAGGCCCCCAGAGTCAGGGTACATCTAGTAACAACTCCACGGAATCAGTGCCAACACTAAATTCAAAACTGATTTGCTTAGGTTCTCCCTGTGTGGTCTCAGGTTCTGTTTGCACTGATGCAGGGCTCAGTGCAGATAGAACTGTGGAAGGAAAGAGCGGTGAGCCATTAAATCACAAACAAGTGTGTTCAGCAGCCCCTGTTGTGGAAAGTGACCCTCTTTCCAGCAGTACTGATGTGGTAAAACAAGGGCTGGTGGAAAATTATTTTGGATCTCAGAGCACTACAGATGTTTCTGATGCATGTGCTATTACCTGCCACAGTCCAGTTAGCTCTCAGGAAACCTGCGACAAAGGGATTAGTGATCTGCAGCAGGAACAGGGCAAAGAGGAGGAAGAGGAGGATCAAGAAATGGTTCAAAATGGGTATCATGAAGAAACAGATTTTTCAGCTACGGATGGAACAGTAAGTGTTCACTATATAAGTGGAAACGAGTTAGGAGAAGGAAGACATGAACAGTCTGAAAAACTAAGCAGCAACTATCTGAGTGCTGGTGTGACTGTTCCTGCTGTTTGTACATCTGGTTGTTTGTCCTTCCCATCTGCTCTGCGAGAGTCTCCTTGTGTTAAATATTCTTCTAGAAGTAAAGTTGATGCCATTACAAAGCAACCAAGCAGCATTTCTTACAACTTCAGTTCTTCAACCTCCTGGTATGAAAATTCACCAAAACCTCAAATACACGCCTTCCTTCAGGCAAAAGAAGAGCTGAAGCAACTCAGACTGCCTGGTTTCATGTACAGTGATGTTCCTCTGCTGGCATCCTCAGCACCGTACTTCAGCATGGACGAAGAGGACGGCTCTGAGGACGGCGTGCATCTCATTGTCTGTGTCCATGGTCTAGATGCTTTCCTCGCCCTGTGA
Peptide sequence:
MQVLYERLLRRTQPRTQNDTCLEEMDVEARLTELCEEVKKVENPDELAELINMNLAQLCSLLMALWGQFLEAITLHEDLRVLLAQEHHTLRVRRFSEAFFCFEHPREAAIAYQELHAQSHLQMCTAIKNTSFCSSLPPLPIECSELDGDLNSLPIIFEDRYLDSVIEGKLAISQDNSDIPDTEHNLASTSSSNDCHDYQTTPSSGVRTLEVKSSSKESFNGEKITVKIGPWTELQEAELFVDNLLPDFEALDSNDKPKSIDIPLERDALQETKCHSTEESLTKFRSNLPAPSTKEYHVAVSSDTIKLPDTNATYASSRFSDSGVESEPSSFATHPNPEIAFETLQGPGPCNNERLFPQLLMKPDHNVKFSLGSHCTESTSALSEIQSSLTSINSLPSDDELSPDDNCKKSAVPDCHLSDSKTVFNLGTMDLPKCDDTKKSSIILQQQSVVFSGHLDNDTLAMHSLDLSTEDPLRLVFLDEDASSGVRSSWGSKPHLDAPFTGPQSQGTSSNNSTESVPTLNSKLICLGSPCVVSGSVCTDAGLSADRTVEGKSGEPLNHKQVCSAAPVVESDPLSSSTDVVKQGLVENYFGSQSTTDVSDACAITCHSPVSSQETCDKGISDLQQEQGKEEEEEDQEMVQNGYHEETDFSATDGTVSVHYISGNELGEGRHEQSEKLSSNYLSAGVTVPAVCTSGCLSFPSALRESPCVKYSSRSKVDAITKQPSSISYNFSSSTSWYENSPKPQIHAFLQAKEELKQLRLPGFMYSDVPLLASSAPYFSMDEEDGSEDGVHLIVCVHGLDAFLAL
IRESfinder result
IRESfinder score
0.676703832
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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