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mmu_circAbcc4_1335
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc4_1335
mm39_Chr. Position ID:
chr14|118727910|118771554|-
Gene name:
Abcc4
Transcript:
ENSMUST00000036554.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
30,29,28,27,26,25,24,23,22,21
Exon/intron offsets:
0,9467,10209,17094,25934,35713,37452,38468,39359,43493
Genomic length:
43644
Exon/intron sizes in nt:
13,51,06,17,39,01,56,10,00,00,00,00,00,000
Flanking exon/introns:
chr14:118721852-118727910|chr14:118771554-118790695
Splice length:
1335
Other database IDs:
circAtlas: mmu-Abcc4_0034
circBase: hsa_circ_0030569, circAtlas: hsa-ABCC4_0009, CIRCpedia: HSA_CIRCpedia_11199
Human Ortholog IDs:
Mature spliced Sequence:
ACGTTGCTCCTCGTCGTAAGTGTGATCGCTGTGGCCGCGGCCGTGATCCCTTGGATCCTCATACCATTGGTTCCGCTCTCAGTCGTCTTCCTGGTTCTTCGGAGATACTTCTTAGAGACGTCACGGGATGTCAAGCGCCTGGAATCCACAACACGGAGCCCGGTATTCTCCCATTTATCGTCCTCCCTCCAGGGACTCTGGACCATCCGGGCTTACAAAGCTGAGGAGAGGTGTCAGGAGCTGTTTGATGCACACCAGGACTTGCATTCAGAGGCTTGGTTCTTGTTCCTGACGACATCGAGATGGTTCGCTGTGCGTCTGGACGCCATCTGCGCCATCTTTGTAATCGTCGTTGCCTTCGGGTCCCTTGTTCTGGCGAAGACTTTGAATGCTGGGCAGGTTGGCCTGGCCTTGTCCTACGCCCTCACACTCATGGGGATGTTCCAGTGGTCTGTGCGACAGAGCGCCGAAGTAGAGAATATGATGATTTCAGTGGAGAGAGTGATTGAGTACACGGACCTAGAGAAGGAGGCGCCTTGGGAGTGCAAGAAGCGCCCACCCCCAGGCTGGCCCCACGAGGGAGTCATCGTCTTCGACAATGTGAACTTCACCTACAGCTTAGATGGGCCTCTGGTTCTGAAGCACCTGACTGCGCTCATCAAGTCCAGGGAAAAGGTTGGAATTGTGGGCAGAACCGGAGCTGGGAAAAGCTCCCTCATCTCGGCCCTCTTCAGGCTGTCAGAACCCGAGGGGAAAATCTGGATCGATAAGATCTTGACAACCGAAATTGGGCTTCACGACTTAAGGAAGAAAATGTCAATCATACCACAGGAACCTGTTCTGTTCACTGGAACCATGAGGAAAAACCTGGACCCCTTCAATGAGCACACGGACGAGGAGCTGTGGAGGGCCTTGGAGGAGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGCAGAATCCAGAGAGC
60.11
CTGAGAGCGGAACCAATGGT
60.04
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGCAGAATCCAGAGAGC
60.11
ACTGAGAGCGGAACCAATGG
60.04
172
PCR template sequence:
GCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAGACGTTGCTCCTCGTCGTAAGTGTGATCGCTGTGGCCGCGGCCGTGATCCCTTGGATCCTCATACCATTGGTTCCGCTCTCAGTCGTCTTCCTGGTTCTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-124-3p(1), mmu-miR-23b-3p(1), mmu-miR-7a-5p(1), mmu-miR-23a-3p(1), mmu-miR-128-3p(1), mmu-miR-541-5p(1), mmu-miR-673-5p(1), mmu-miR-574-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACAGCAAAACAGACGTTGCTCCTCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC4_1335_ORF_1
1.1734
0.321533635
0.999999409
2238
ORF sequence:
ATGGGGATGTTCCAGTGGTCTGTGCGACAGAGCGCCGAAGTAGAGAATATGATGATTTCAGTGGAGAGAGTGATTGAGTACACGGACCTAGAGAAGGAGGCGCCTTGGGAGTGCAAGAAGCGCCCACCCCCAGGCTGGCCCCACGAGGGAGTCATCGTCTTCGACAATGTGAACTTCACCTACAGCTTAGATGGGCCTCTGGTTCTGAAGCACCTGACTGCGCTCATCAAGTCCAGGGAAAAGGTTGGAATTGTGGGCAGAACCGGAGCTGGGAAAAGCTCCCTCATCTCGGCCCTCTTCAGGCTGTCAGAACCCGAGGGGAAAATCTGGATCGATAAGATCTTGACAACCGAAATTGGGCTTCACGACTTAAGGAAGAAAATGTCAATCATACCACAGGAACCTGTTCTGTTCACTGGAACCATGAGGAAAAACCTGGACCCCTTCAATGAGCACACGGACGAGGAGCTGTGGAGGGCCTTGGAGGAGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAGACGTTGCTCCTCGTCGTAAGTGTGATCGCTGTGGCCGCGGCCGTGATCCCTTGGATCCTCATACCATTGGTTCCGCTCTCAGTCGTCTTCCTGGTTCTTCGGAGATACTTCTTAGAGACGTCACGGGATGTCAAGCGCCTGGAATCCACAACACGGAGCCCGGTATTCTCCCATTTATCGTCCTCCCTCCAGGGACTCTGGACCATCCGGGCTTACAAAGCTGAGGAGAGGTGTCAGGAGCTGTTTGATGCACACCAGGACTTGCATTCAGAGGCTTGGTTCTTGTTCCTGACGACATCGAGATGGTTCGCTGTGCGTCTGGACGCCATCTGCGCCATCTTTGTAATCGTCGTTGCCTTCGGGTCCCTTGTTCTGGCGAAGACTTTGAATGCTGGGCAGGTTGGCCTGGCCTTGTCCTACGCCCTCACACTCATGGGGATGTTCCAGTGGTCTGTGCGACAGAGCGCCGAAGTAGAGAATATGATGATTTCAGTGGAGAGAGTGATTGAGTACACGGACCTAGAGAAGGAGGCGCCTTGGGAGTGCAAGAAGCGCCCACCCCCAGGCTGGCCCCACGAGGGAGTCATCGTCTTCGACAATGTGAACTTCACCTACAGCTTAGATGGGCCTCTGGTTCTGAAGCACCTGACTGCGCTCATCAAGTCCAGGGAAAAGGTTGGAATTGTGGGCAGAACCGGAGCTGGGAAAAGCTCCCTCATCTCGGCCCTCTTCAGGCTGTCAGAACCCGAGGGGAAAATCTGGATCGATAAGATCTTGACAACCGAAATTGGGCTTCACGACTTAAGGAAGAAAATGTCAATCATACCACAGGAACCTGTTCTGTTCACTGGAACCATGAGGAAAAACCTGGACCCCTTCAATGAGCACACGGACGAGGAGCTGTGGAGGGCCTTGGAGGAGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAG
Peptide sequence:
MGMFQWSVRQSAEVENMMISVERVIEYTDLEKEAPWECKKRPPPGWPHEGVIVFDNVNFTYSLDGPLVLKHLTALIKSREKVGIVGRTGAGKSSLISALFRLSEPEGKIWIDKILTTEIGLHDLRKKMSIIPQEPVLFTGTMRKNLDPFNEHTDEELWRALEEVQLKEAIEDLPGKMDTELAESGSNFSVGQRQLVCLARAILKNNRILIIDEATANVDPRTDELIQQKIREKFAQCTVLTIAHRLNTIIDSDKIMVLDSGRLKEYDEPYVLLQNPESLFYKMVQQLGKGEAAALTETAKQTLLLVVSVIAVAAAVIPWILIPLVPLSVVFLVLRRYFLETSRDVKRLESTTRSPVFSHLSSSLQGLWTIRAYKAEERCQELFDAHQDLHSEAWFLFLTTSRWFAVRLDAICAIFVIVVAFGSLVLAKTLNAGQVGLALSYALTLMGMFQWSVRQSAEVENMMISVERVIEYTDLEKEAPWECKKRPPPGWPHEGVIVFDNVNFTYSLDGPLVLKHLTALIKSREKVGIVGRTGAGKSSLISALFRLSEPEGKIWIDKILTTEIGLHDLRKKMSIIPQEPVLFTGTMRKNLDPFNEHTDEELWRALEEVQLKEAIEDLPGKMDTELAESGSNFSVGQRQLVCLARAILKNNRILIIDEATANVDPRTDELIQQKIREKFAQCTVLTIAHRLNTIIDSDKIMVLDSGRLKEYDEPYVLLQNPESLFYKMVQQLGKGEAAALTETAKQ
IRESfinder result
IRESfinder score
0.493052775
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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