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mmu_ciAbi1_3120
Basic information of circular RNA
PanCircBase ID:
mmu_ciAbi1_3120
mm39_Chr. Position ID:
chr2|22840326|22843446|-
Gene name:
Abi1
Transcript:
ENSMUST00000126112.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
3120
Exon/intron sizes in nt:
3120
Flanking exon/introns:
chr2:22840282-22843446
Splice length:
3120
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCTTGTGTTTGCAGGCATACAGCAATAGTGGAGCTCCTTTTTAAAGGAAATTATTTGAAACTGTTATTCTTGACTGTGATAGACAACAATTTAAGCCATGCTATTTCATGCTTGTTTTTGCTTTGAATGTTAATCCTTGAATAACCATCTTAAATATTACTGCTTATTTATTCTCCAGGGTTCACTCAAGTATACTTAATCTACCAAATTCAACAAATATTTTAATGTGCTATTATTAGTATTACTACAGTATAATTTGAACTAGAGAACAAAACAATCTTAAATTTTATCAGCATGATTTTGATGGTTCAGTAATGGTACGAAGACACAAACACAGCCAAAGAACTTTTTAAAGAATTTAATGAAAAGAAATTGCTGGCTATCACTTCTAAGGTTGTGACCTCTTTTGAAATGCTTTCAAATGAAAACATTTACAATGCCTGCTTACTTTCTCTTTCTGAATAATTCTAACAGGTGGGAGGGATTTTCTTTTGATTTCCCTTTGTTTACTTCAAAATACACATCTCAGTACTAATTACAGCCAGTGTTTAAAACCTTTTACAGAAAATAGAGTTAGAAAGGAAAGGCTTGAATATCTGAGGATAATCATTGAGTTCACTTTCCATGTTAAGATACTAAATTCAGAACAAAAATAGTTTGAAATAAGCCTGTTGTCCAGTATTTGTTTTTGTCGTGAAGTTACTGGGTGTGGCTGACAGGTTTTTCTATGGCAGCTTCATTTTAAGTATTTCTAGAACTGAATGTTCTATAAAAATAATGGTGACTACTCTGCATTACATGGGATTTGCTTGGCTCTTTTATTTGTATTCATATTACGTGCATATTTTTGGTTTTTGCTTGTTTGTTTGTTTTTTTTAAAAGACAAGGCCATACTTTGTAGCCTTGAAATAGCTTTGAAAGTTAGTGCTCTAAGTAACTGGCCTGGCACTGCTTAAGTCATACTGGCCTTGAACTTGCAGCCCTCCTTCTTTTTGGGATGATAGGCAAGCACCACTATGCCTAACTTAAGTAGAGGCTAATGGTCTTTTGTTTAAAATTTTGAGTTAGAGGGTAACTGAGTTATAGCAAATTGAAAACCATTTTGTCTTAAATGTCTATATTTACAGAGAACCTCAGATTTTATACAGCTTTTTTTCCAGACCTGAATTTCCAGAATTCAGGCTACTATGAAATAATAAACTCTTGCCTGCTATTTTACTTCACATCCCCCTTTGTTGATATTGAGTGATAGCCTCAGTGTCTGAATGCTCTGTAACTCAGTCGTTTAGGTGGTGGTGGTTGTTCTGTTTTGTGGAGATAGGTCGTTCTGGAACGCAGTATGGCGTTCAGGCTGGCTTTGAATGTAGAGATCTACCTACTTCTGCCTCCTGAATCCTAGAATTAATGGCATATACAATCAAGACAAATTAGTTGTTTATTCCACTAGTGTCTGAACTTTCTTTTCATATTCTGCTTTTTCCATCCCATCTTTATGATCATTATCTTCCCTCCCCCACTTTGTCTTTAAATTTATTCTGCAAATAGGGTTTTTAATTTCACCAATCTACACTTGTCTAGTTTCACACATGTTTGTGGGATACTTCCTTAGTAAATATCAGTATTCTTTTTGAAACTGGAAAGGAAACTTAGCCTGGGGTGTAAAGCATGTTTTGTTTTATCCATTTCCCCTTCAGTCTGAGCTGCTGGTGCAGGTTACTGGTACGTGGCTGTGTTTAGTGCTGTGATGTGCCGCTTCCTCTCCTTATATGTGCTGGTGATGAGCATCTTCATAGTAACCTCCTGTCTCTTCTCCCACAGCTAACGAGCATGGCTAGTCACTAAGGGCTCTTTCTTGAAACTATTTTGACTAATGGGAGGCTTTTTTGTTTTAAAATCAATACTCTAACCATTTAACAAGTGTTCTCTGTAACAGAATGAAAACCAGTTTCTGCTAGTAAATGGAATGCTGTTTTTAGATCTGTATGAACTATCAGCACATATATATTTCTCTAACTTTTAACTTGGAACGTCTATCACATTTTTATGCTTACCAACACATTTGTACCTTGGATTAAAATGATAAATATTAGGGACCAATAAAGTTGTTTTTCTTGGATAATGTAACATCACTTAGTGGTGACCACTGGGAAACCGATCTTTCCACTTGAACCCATTGACTTGTTGGATCTTCAGCAATTACTGTCTTGTTAAAGAGACAAAGTAAACATATCTTTGCTTCTAGTTTGTGGCAATCTTTCATATATTTGTTAGTCATAGGAACATTTGATACCAATTTCTTATAAAGTATCTCCTGAAAAAGGTTACACATGCTTCAAGCCAGCCAGTATCTGGCTGCATTATATTAATCAGAAATGAATATAGTACAAATAATTATACATTTTGACTGATTAGAGAGATTAAGTTTCCTTTTTCAGTATCCATAAAAAGACCATATTTGATAACTTCCCCTCAGAGACTGAATGATTAACTATTAGGTACATGGAACACTCTTGTCCCTTAGTAAGTTCAGGGCTGATTTCTTACAAATAAAGCTGGCAATTTAAAAAGTAACAAATCTTACTTTTGTAAGAAAATATTATCCAGAGAAGTATGTAAATTTAGATATATAAGCACTTTCTTCAAAGGTAACTCATGATTAATGCATTGATTTATCTACATATTTATACATGTAATCAACAGCTGTTAAACATTATTTGGTTTTAAAAACCAAATAATGTTTAACAGCTAGACAGGTCTGTTAGTTTATAGACTTAAAGCAAAACAGTTTGTTGGCAGGCTCTGTAGATGTTTAAGTGTAACATATTTTAGAAGTTTTTCTTTGAAAAGCATTGTGCTAAAATAAATGTTACAGTAAATTAAAAAGTTCCCCAAATAATGTAATGCTAGGTTAAAAGTAAGTATATTTATTATTTTATGCACTTATCCTATGGCTGAGCACAGTGTGGCCTTAGGTTCTGTGGGGACAAAAACTTGAAGAGGGTAGCAGGGTTTGTTTGTTTGTTTTTGTTTTGTTTGTTTTCATTTGCAGACTGTTCTTGGCATACTTATTTATGTTTGTGGTCCTTGTAACTGACTTCTGCTTTTTGTTTGTTTCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGCAGACTGTTCTTGGCA
58.24
TGTTGTCTATCACAGTCAAGAA
55.08
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGCAGACTGTTCTTGGCA
58.24
TTGTTGTCTATCACAGTCAAGA
55.08
167
PCR template sequence:
GTTTGTTTTTGTTTTGTTTGTTTTCATTTGCAGACTGTTCTTGGCATACTTATTTATGTTTGTGGTCCTTGTAACTGACTTCTGCTTTTTGTTTGTTTCCGTAAGCTTGTGTTTGCAGGCATACAGCAATAGTGGAGCTCCTTTTTAAAGGAAATTATTTGAAACTGTTATTCTTGACTGTGATAGACAACAATTTAAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(2), mmu-miR-495-3p(2), mmu-miR-335-3p(2), mmu-miR-20b-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-132-3p(1), mmu-miR-709(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-127-5p(1), mmu-miR-212-3p(1), mmu-miR-467b-5p(1), mmu-miR-297a-5p(1), mmu-miR-705(1), mmu-miR-1187(1), mmu-miR-190b-5p(1), mmu-miR-673-5p(1), mmu-miR-539-5p(1), mmu-miR-188-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGTTTGTTTCCGTAAGCTTGTGTT
siRNA sets
AACACAAGCTTACGGAAAC, ACACAAGCTTACGGAAACA, CAAGCTTACGGAAACAAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.938719458
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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