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mmu_circAcvr1_1415
Basic information of circular RNA
PanCircBase ID:
mmu_circAcvr1_1415
mm39_Chr. Position ID:
chr2|58358525|58427885|-
Gene name:
Acvr1
Transcript:
ENSMUST00000090935.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,5659,9091,11151,31970,38763,47510,69264
Genomic length:
69360
Exon/intron sizes in nt:
147,100,212,264,74,245,277,96
Flanking exon/introns:
chr2:58353168-58358525|chr2:58427885-58456798
Splice length:
1415
Other database IDs:
CIRCpedia: MMU_CIRCpedia_226139
Human Ortholog IDs:
Mature spliced Sequence:
GAACAAAGGAGCTGCCCCCGTGTCACCCAGCCCTTCAGTGGAAGTCTGGAAAAGGAACAGAGGTGATATTGCAGTGGATGAGCAGAGAGAAGCCGGCCTCTGGTGCTCTTGAGCTGGTCTGCCCATAGGGAGCCTGCTGGGAGAAGGTACAGCTTCCGGAAGACTCCTCCCGGAGCGCCTCTCCCATCCTCCTCTCCCTTGGAGCAGTCAGTACCTCTCTGCTGGAGGATCTGGGCTGGGTGTGCCGGGAGCTGGCTTTAACTGTAGCCCTGTCAGGCTTTCCCCGGACCTCGCGGAAGAGCGTCACCAGCCCCCACGGCTTTCCAACACATCACCTCTTTTCATGCCGTTTGGCACAGATCGAATCTACAGGGATGAATGGATCCAGGGTCTGGTTTTAAGTTCTATGGTAGTCGTCCAAGGAGCCATTGGTATTCATCTAACGCAAACGATCAAGTTACATTCTGAAAGTAACATCCCACCAGAAACCCTCCAGCAGCAGTCACGTCTGTGTAAAGCCAAGCCCTGGCATGCGCACTGCCAGGTCAGAGTGTGGTGGTACACGTGTTTAACAGGTCATTTGTCAACTGAAGGAAAGACCCCGGCTTGACTTACCTGTTATACAATGGTCGATGGAGTAATGATCCTTCCTGTGCTAATGATGATGGCTTTCCCTTCCCCGAGTGTGGAAGATGAGAAGCCCAAGGTCAACCAGAAACTTTACATGTGTGTGTGTGAGGGCCTCTCCTGCGGGAACGAGGACCACTGTGAAGGCCAGCAGTGTTTTTCTTCTCTGAGCATCAACGATGGCTTCCACGTCTACCAGAAGGGCTGCTTTCAGGTTTATGAGCAGGGGAAGATGACGTGTAAGACCCCGCCGTCACCTGGCCAGGCTGTGGAGTGCTGCCAAGGGGACTGGTGTAACAGGAACATCACGGCCCAGCTGCCCACTAAAGGGAAGTCCTTCCCCGGAACACAGAATTTCCACCTGGAAGTTGGCCTTATCATCCTCTCGGTGGTGTTTGCAGTATGTCTTTTAGCTTGCATCCTTGGAGTTGCTCTCAGGAAGTTTAAGAGACGCAATCAAGAGCGCCTGAACCCCAGAGACGTGGAGTATGGTACCATTGAAGGGCTCATCACCACCAATGTGGGAGACAGCACTCTAGCGGAACTACTAGATCACTCGTGTACATCAGGAAGTGGCTCCGGTCTTCCTTTCCTGGTACAGAGAACGGTGGCTCGCCAGATAACCCTGTTGGAGTGTGTCGGGAAGGGCCGGTATGGAGAAGTATGGAGGGGCAGCTGGCAAGGCGAAAATGTCGCTGTGAAGATCTTCTCCTCCCGAGACGAGAAGTCATGGTTCAGGGAGACGGAATTGTACAACACTGTGATGTTGAGGCATGAAAATATCTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCTCCCGAGACGAGAAG
60.11
CGGCTTCTCTCTGCTCATCC
60.25
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCTCCCGAGACGAGAAG
60.11
CCGGCTTCTCTCTGCTCATC
60.25
177
PCR template sequence:
AATGTCGCTGTGAAGATCTTCTCCTCCCGAGACGAGAAGTCATGGTTCAGGGAGACGGAATTGTACAACACTGTGATGTTGAGGCATGAAAATATCTTAGGAACAAAGGAGCTGCCCCCGTGTCACCCAGCCCTTCAGTGGAAGTCTGGAAAAGGAACAGAGGTGATATTGCAGTGGATGAGCAGAGAGAAGCCGGCCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
25
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(2), mmu-miR-27a-3p(2), mmu-miR-207(2), mmu-miR-134-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-34a-5p(1), mmu-miR-30a-5p(1), mmu-miR-7a-5p(1), mmu-miR-10b-5p(1), mmu-miR-139-5p(1), mmu-miR-10a-5p(1), mmu-miR-181b-5p(1), mmu-miR-30d-5p(1), mmu-miR-214-3p(1), mmu-miR-434-3p(1), mmu-miR-411-3p(1), mmu-miR-107-3p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-3470b(1), mmu-miR-3105-3p(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAATATCTTAGGAACAAAGGAGCT
siRNA sets
TTGTTCCTAAGATATTTTC, TTTGTTCCTAAGATATTTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACVR1_1415_ORF_1
0.8724
0.238724742
0.980424802
918
ORF sequence:
ATGGTCGATGGAGTAATGATCCTTCCTGTGCTAATGATGATGGCTTTCCCTTCCCCGAGTGTGGAAGATGAGAAGCCCAAGGTCAACCAGAAACTTTACATGTGTGTGTGTGAGGGCCTCTCCTGCGGGAACGAGGACCACTGTGAAGGCCAGCAGTGTTTTTCTTCTCTGAGCATCAACGATGGCTTCCACGTCTACCAGAAGGGCTGCTTTCAGGTTTATGAGCAGGGGAAGATGACGTGTAAGACCCCGCCGTCACCTGGCCAGGCTGTGGAGTGCTGCCAAGGGGACTGGTGTAACAGGAACATCACGGCCCAGCTGCCCACTAAAGGGAAGTCCTTCCCCGGAACACAGAATTTCCACCTGGAAGTTGGCCTTATCATCCTCTCGGTGGTGTTTGCAGTATGTCTTTTAGCTTGCATCCTTGGAGTTGCTCTCAGGAAGTTTAAGAGACGCAATCAAGAGCGCCTGAACCCCAGAGACGTGGAGTATGGTACCATTGAAGGGCTCATCACCACCAATGTGGGAGACAGCACTCTAGCGGAACTACTAGATCACTCGTGTACATCAGGAAGTGGCTCCGGTCTTCCTTTCCTGGTACAGAGAACGGTGGCTCGCCAGATAACCCTGTTGGAGTGTGTCGGGAAGGGCCGGTATGGAGAAGTATGGAGGGGCAGCTGGCAAGGCGAAAATGTCGCTGTGAAGATCTTCTCCTCCCGAGACGAGAAGTCATGGTTCAGGGAGACGGAATTGTACAACACTGTGATGTTGAGGCATGAAAATATCTTAGGAACAAAGGAGCTGCCCCCGTGTCACCCAGCCCTTCAGTGGAAGTCTGGAAAAGGAACAGAGGTGATATTGCAGTGGATGAGCAGAGAGAAGCCGGCCTCTGGTGCTCTTGAGCTGGTCTGCCCATAG
Peptide sequence:
MVDGVMILPVLMMMAFPSPSVEDEKPKVNQKLYMCVCEGLSCGNEDHCEGQQCFSSLSINDGFHVYQKGCFQVYEQGKMTCKTPPSPGQAVECCQGDWCNRNITAQLPTKGKSFPGTQNFHLEVGLIILSVVFAVCLLACILGVALRKFKRRNQERLNPRDVEYGTIEGLITTNVGDSTLAELLDHSCTSGSGSGLPFLVQRTVARQITLLECVGKGRYGEVWRGSWQGENVAVKIFSSRDEKSWFRETELYNTVMLRHENILGTKELPPCHPALQWKSGKGTEVILQWMSREKPASGALELVCP
IRESfinder result
IRESfinder score
0.472885173
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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