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mmu_circAblim1_679
Basic information of circular RNA
PanCircBase ID:
mmu_circAblim1_679
mm39_Chr. Position ID:
chr19|57049684|57072035|-
Gene name:
Ablim1
Transcript:
ENSMUST00000079360.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
14,13,12,11,10,9,8,7
Exon/intron offsets:
0,2513,6838,7607,12602,16161,18560,22263
Genomic length:
22351
Exon/intron sizes in nt:
130,36,156,78,48,84,59,88
Flanking exon/introns:
chr19:57047636-57049684|chr19:57072035-57121293
Splice length:
679
Other database IDs:
circBase: mmu_circ_0007914, CIRCpedia: MMU_CIRCpedia_23743, circAtlas: mmu-Ablim1_0011
circBase: hsa_circ_0020071, circAtlas: hsa-ABLIM1_0005, CIRCpedia: HSA_CIRCpedia_465
Human Ortholog IDs:
Mature spliced Sequence:
GCAGGCGACAAGCATTATCATCCCAGCTGCGCACGATGCAGCAGATGCAATCAGATGTTCACAGAAGGGGAAGAAATGTATCTGCAAGGTTCTACCGTGTGGCATCCCGACTGTAAGCAGTCCACTAAGACAGAGGAGAAGCTGCGGCCACCAAACATCCCGCGCTCTTCATCCGATTTCTTTTACCCCAAAAGTCTGATTCGTCGCACAGGACGGTCCCCAGCTCTGCAGCTTCTGTCGCCACCCTGTCTGATGAACTCCAACAAAAACCCCAGGCAGCCCACCAGGACCTCCTCTGAAAGTATCTATTCTAGACCAGGCTCCAGCATCCCTGGTTCACCAGGCCATACTATCTATGCAAAAGTAGACAATGAAATCCTGGATTACAAGGATTTAGCAGCCATCCCCAAGGTCAAGGCGATCTATGACATCGAGCGTCCAGATCTCATTACCTATGAGCCTTTCTACACATCAGGCTATGAGGACAAGCAGGAGAGACAGAGCCTTGGAGAGTCTCCAAGGACTTTGTCTCCAACTCCATCTGCAGAAGGTTATCAAGATGTCCGGGATCGGATGATCCACAGGTCCACCAGCCAGGGCTCCATCAACTCCCCTGTGTATAGCCGGCACAGTTACACTCCAACTACGTCTCGCTCGCCCCAGCACTTCCACCGACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACTCCAACTACGTCTCGC
59.76
ACACGGTAGAACCTTGCAGA
58.95
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAGCCGGCACAGTTACACTC
59.75
ACACGGTAGAACCTTGCAGA
58.95
159
PCR template sequence:
CACAGGTCCACCAGCCAGGGCTCCATCAACTCCCCTGTGTATAGCCGGCACAGTTACACTCCAACTACGTCTCGCTCGCCCCAGCACTTCCACCGACCTGGCAGGCGACAAGCATTATCATCCCAGCTGCGCACGATGCAGCAGATGCAATCAGATGTTCACAGAAGGGGAAGAAATGTATCTGCAAGGTTCTACCGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-122-5p(1), mmu-miR-138-5p(1), mmu-miR-511-3p(1), mmu-miR-362-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCACCGACCTGGCAGGCGACAAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABLIM1_679_ORF_1
0.507
0.258147461
0.888021423
741
ORF sequence:
ATGTTCACAGAAGGGGAAGAAATGTATCTGCAAGGTTCTACCGTGTGGCATCCCGACTGTAAGCAGTCCACTAAGACAGAGGAGAAGCTGCGGCCACCAAACATCCCGCGCTCTTCATCCGATTTCTTTTACCCCAAAAGTCTGATTCGTCGCACAGGACGGTCCCCAGCTCTGCAGCTTCTGTCGCCACCCTGTCTGATGAACTCCAACAAAAACCCCAGGCAGCCCACCAGGACCTCCTCTGAAAGTATCTATTCTAGACCAGGCTCCAGCATCCCTGGTTCACCAGGCCATACTATCTATGCAAAAGTAGACAATGAAATCCTGGATTACAAGGATTTAGCAGCCATCCCCAAGGTCAAGGCGATCTATGACATCGAGCGTCCAGATCTCATTACCTATGAGCCTTTCTACACATCAGGCTATGAGGACAAGCAGGAGAGACAGAGCCTTGGAGAGTCTCCAAGGACTTTGTCTCCAACTCCATCTGCAGAAGGTTATCAAGATGTCCGGGATCGGATGATCCACAGGTCCACCAGCCAGGGCTCCATCAACTCCCCTGTGTATAGCCGGCACAGTTACACTCCAACTACGTCTCGCTCGCCCCAGCACTTCCACCGACCTGGCAGGCGACAAGCATTATCATCCCAGCTGCGCACGATGCAGCAGATGCAATCAGATGTTCACAGAAGGGGAAGAAATGTATCTGCAAGGTTCTACCGTGTGGCATCCCGACTGTAA
Peptide sequence:
MFTEGEEMYLQGSTVWHPDCKQSTKTEEKLRPPNIPRSSSDFFYPKSLIRRTGRSPALQLLSPPCLMNSNKNPRQPTRTSSESIYSRPGSSIPGSPGHTIYAKVDNEILDYKDLAAIPKVKAIYDIERPDLITYEPFYTSGYEDKQERQSLGESPRTLSPTPSAEGYQDVRDRMIHRSTSQGSINSPVYSRHSYTPTTSRSPQHFHRPGRRQALSSQLRTMQQMQSDVHRRGRNVSARFYRVASRL
IRESfinder result
IRESfinder score
0.492322993
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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