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mmu_circFam126a_780
Basic information of circular RNA
PanCircBase ID:
mmu_circFam126a_780
mm39_Chr. Position ID:
chr5|24185484|24196835|-
Gene name:
Fam126a
Transcript:
ENSMUST00000101513.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,2663,5258,5651,6247,7398,11249
Genomic length:
11351
Exon/intron sizes in nt:
8,81,17,96,11,68,11,80,000
Flanking exon/introns:
chr5:24184645-24185484|chr5:24196835-24204938
Splice length:
780
Other database IDs:
circBase: mmu_circ_0012455, CIRCpedia: MMU_CIRCpedia_14011, circAtlas: mmu-Fam126a_0013
Human Ortholog IDs:
Mature spliced Sequence:
ACACTCCCAGAAACATCTTTGCCAAATTATGCCACAAATTTGAAAGACAAGAGTTCTTTAGTTACATCTCTCTATAAAGTTATCCAGGAGCCACAGAGTGAGTTACTAGAGCCCGTGTGTCACCAGCTCTTTGAGTTCTACCGCAGTGGGGAGGAGCAGCTGCTGCGCTTCACTCTGCAGTTCCTCCCGGAGCTGATGTGGTGCTACCTCGCCGTGTCGGCCAGCAGAGATGTGCACAGCAGCGGCTGCATTGAGGCTCTCCTGCTGGGGGTTTACAACCTGGAAATAGTTGACAAACACGGACATAGTAAAGTATTGAGTTTTACAATTCCATCTTTATCCAAACCATCTGTATATCATGAACCTTCCAGCATTGGGTCTATGGCGCTGACGGAGAGTGCGCTGTCCCAGCATGGCTTATCAAAAGTCGTGTACAGTGGACCCCATCCTCAACGGGAGATGCTGACAGCACAGAACAGGTTTGAAGTATTGACATTCCTTCTGCTGTGTTACAATGCTGCCTTAACCTACATGCCCAGTGTCTCTCTTCAGTCACTGTGTCAGATTTGTTCAAGAATATGTGTCTGTGGCTATCCCCGACAACATGTAAGAAAATACAGAGGTGTGAGCAGCAGGATACCGATTTCATCCGGCTTCATGGTGCAGATGCTAACAGGAGTGTATTTTGCCATATACAATGGAGAATGGGATCTAGCTCAGAAAGCACTGGATGACATTATATACAGAGCCCAGCTAGAATTGTATCCAGAGCCTCTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGAAAGCACTGGATGACA
57.95
CACTCTGTGGCTCCTGGATA
58.51
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGAAAGCACTGGATGACA
56.77
CACTCTGTGGCTCCTGGATA
58.51
164
PCR template sequence:
GTATTTTGCCATATACAATGGAGAATGGGATCTAGCTCAGAAAGCACTGGATGACATTATATACAGAGCCCAGCTAGAATTGTATCCAGAGCCTCTGCTGACACTCCCAGAAACATCTTTGCCAAATTATGCCACAAATTTGAAAGACAAGAGTTCTTTAGTTACATCTCTCTATAAAGTTATCCAGGAGCCACAGAGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-let-7d-5p(1), mmu-miR-136-5p(1), mmu-miR-107-3p(1), mmu-miR-3087-3p(1), mmu-miR-3470b(1), mmu-miR-7a-1-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGCCTCTGCTGACACTCCCAGAAA
siRNA sets
TTTCTGGGAGTGTCAGCAG, TGGGAGTGTCAGCAGAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM126A_780_ORF_1
0.6986
0.077360098
0.997946457
1365
ORF sequence:
ATGTGGTGCTACCTCGCCGTGTCGGCCAGCAGAGATGTGCACAGCAGCGGCTGCATTGAGGCTCTCCTGCTGGGGGTTTACAACCTGGAAATAGTTGACAAACACGGACATAGTAAAGTATTGAGTTTTACAATTCCATCTTTATCCAAACCATCTGTATATCATGAACCTTCCAGCATTGGGTCTATGGCGCTGACGGAGAGTGCGCTGTCCCAGCATGGCTTATCAAAAGTCGTGTACAGTGGACCCCATCCTCAACGGGAGATGCTGACAGCACAGAACAGGTTTGAAGTATTGACATTCCTTCTGCTGTGTTACAATGCTGCCTTAACCTACATGCCCAGTGTCTCTCTTCAGTCACTGTGTCAGATTTGTTCAAGAATATGTGTCTGTGGCTATCCCCGACAACATGTAAGAAAATACAGAGGTGTGAGCAGCAGGATACCGATTTCATCCGGCTTCATGGTGCAGATGCTAACAGGAGTGTATTTTGCCATATACAATGGAGAATGGGATCTAGCTCAGAAAGCACTGGATGACATTATATACAGAGCCCAGCTAGAATTGTATCCAGAGCCTCTGCTGACACTCCCAGAAACATCTTTGCCAAATTATGCCACAAATTTGAAAGACAAGAGTTCTTTAGTTACATCTCTCTATAAAGTTATCCAGGAGCCACAGAGTGAGTTACTAGAGCCCGTGTGTCACCAGCTCTTTGAGTTCTACCGCAGTGGGGAGGAGCAGCTGCTGCGCTTCACTCTGCAGTTCCTCCCGGAGCTGATGTGGTGCTACCTCGCCGTGTCGGCCAGCAGAGATGTGCACAGCAGCGGCTGCATTGAGGCTCTCCTGCTGGGGGTTTACAACCTGGAAATAGTTGACAAACACGGACATAGTAAAGTATTGAGTTTTACAATTCCATCTTTATCCAAACCATCTGTATATCATGAACCTTCCAGCATTGGGTCTATGGCGCTGACGGAGAGTGCGCTGTCCCAGCATGGCTTATCAAAAGTCGTGTACAGTGGACCCCATCCTCAACGGGAGATGCTGACAGCACAGAACAGGTTTGAAGTATTGACATTCCTTCTGCTGTGTTACAATGCTGCCTTAACCTACATGCCCAGTGTCTCTCTTCAGTCACTGTGTCAGATTTGTTCAAGAATATGTGTCTGTGGCTATCCCCGACAACATGTAAGAAAATACAGAGGTGTGAGCAGCAGGATACCGATTTCATCCGGCTTCATGGTGCAGATGCTAACAGGAGTGTATTTTGCCATATACAATGGAGAATGGGATCTAGCTCAGAAAGCACTGGATGACATTATATACAGAGCCCAGCTAGAATTGTATCCAGAGCCTCTGCTG
Peptide sequence:
MWCYLAVSASRDVHSSGCIEALLLGVYNLEIVDKHGHSKVLSFTIPSLSKPSVYHEPSSIGSMALTESALSQHGLSKVVYSGPHPQREMLTAQNRFEVLTFLLLCYNAALTYMPSVSLQSLCQICSRICVCGYPRQHVRKYRGVSSRIPISSGFMVQMLTGVYFAIYNGEWDLAQKALDDIIYRAQLELYPEPLLTLPETSLPNYATNLKDKSSLVTSLYKVIQEPQSELLEPVCHQLFEFYRSGEEQLLRFTLQFLPELMWCYLAVSASRDVHSSGCIEALLLGVYNLEIVDKHGHSKVLSFTIPSLSKPSVYHEPSSIGSMALTESALSQHGLSKVVYSGPHPQREMLTAQNRFEVLTFLLLCYNAALTYMPSVSLQSLCQICSRICVCGYPRQHVRKYRGVSSRIPISSGFMVQMLTGVYFAIYNGEWDLAQKALDDIIYRAQLELYPEPLL
IRESfinder result
IRESfinder score
0.678186753
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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