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mmu_circArfgef3_3113
Basic information of circular RNA
PanCircBase ID:
mmu_circArfgef3_3113
mm39_Chr. Position ID:
chr10|18483392|18522807|-
Gene name:
Arfgef3
Transcript:
ENSMUST00000215836.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
26,25,24,23,22,21,20,19,18,17,16,15,14,13,12
Exon/intron offsets:
0,676,3559,5493,9204,12003,13481,17503,19976,22386,22635,23174,27118,28035,38516
Genomic length:
39415
Exon/intron sizes in nt:
145,104,123,145,180,146,134,318,151,111,216,108,166,167,899
Flanking exon/introns:
chr10:18479283-18483392|chr10:18522807-18523551
Splice length:
3113
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CATCATGGACGGCATGACAGAAGCATGCATCAAAGGAGGCATTGAAGCCTGCTACGCTGCTGTGTCCTGTGTCTGCACCTTGCTTGGGGCTCTGGATGAACTCAGCCAAGGGAAAGGCTTGAATGACACTCAAGTGCAGCAGCTGCTTCTGCGCCTTGAAGAGCTGAGGGATGGGGCCGAGTCGAGCCGGGACTCCATGGAAATTAATGAGGCTGACTTCCGCTGGCAGCGGAGAGTGCTGTCTTCGGAGCACACTCCATGGGAGTCAGGCAATGAGAGGAGCCCTGACATCAGCATCAGTGTCACCACAGACACAGGCCAGACTACCTTGGAAGGAGAATTGGGTCAGACGACACCAGAGGACCACAAGAATGGGCTCAAGTCACCAGCCATTCAGGAAGGCAAGGGGACCATGGGCAAAGTGTCAGAACCTGAGGCTATAGACCAGCCAGATGTGGTTCAGAGAAGCCACACAGTCCCTTACCCCGATATCACCAACTTCCTGTCAGTGGACTGCAGGACAAGGTCCTACGGATCTAGGTATAGTGAGAGCAACTTCAGTGTAGATGACCAAGACCTGTCGAGGACTGAATTTGATTCCTGTGATCAGTATTCCATGGCGGCAGAAAAGGACTCAGGGAGGTCTGATGTGTCAGACATTGGGTCAGACAACTGTTCCCTGGCTGATGAAGAACAGACCCCTCGGGACTACATAGGCCATCGGTCCCTTCGAACCGCTGCTTTGTCTCTCAAACTGCTAAAGAACCAGGAGGCAGACCAGCACAGCGCCCGACTGTTTATACAGTCCCTTGAGGGCCTCCTACCCCGGCTGCTGGCCCTGTCCAGTGTGGAAGAGGTGGACTCCGCCCTTCAGAACTTTGCCTCTACTTTCTGCTCAGGCATGATGCACTCTCCTGGCTTTGATGGAGGCAGTAGCCTGAGCTTCCAGATGCTGATGAATGCAGACAGCTTGTACACAGCGGCACACTGTGCCCTACTGCTCAACCTGAAGCTCTCCCACGGTGACTACTACCGGAAGCGACCAACCGTGGCACCAGGCATGATGAAAGAGTTCATGAAACAGGTGCAGACCAGCGGCGTGCTCATGGTCTTCTCCCAGGCCTGGCTCGAGGAACTGTACCATCAGGTGCTGGACAGAAACATGCTGGGAGAAGCTGGCTACTGGGGCAGCCCTGAGGACAACAGCCTTCCCCTCATCACCATGCTCACCGATATCGATGGTCTAGAGAGTAGCGCAATCGGTGGCCAGTTGATGGCGTCAGCTTCAGTGGAGTCACCTTTCACCCAGAGCAGGAGACTTGATGACTCCACGGTAGCAGGTGTTGCATTTGCCCGTTATATTTTGGTTGGCTGCTGGAAGAACCTGATTGATACTCTGTCAACCCCCTTGACTGGTCGGATGGCAGGAAGCTCCAAGGGGTTGGCCTTCATCCTTGGAGCTGAGGGTATCAAAGAGCAGAACCAGAAAGAGCGAGATGCCATCTGCATGAGCCTTGATGGGCTAAGGAAAGCTGCGCGACTGAGCTGTGCACTCGGGGTCGCTGCTAACTGTGCCTCAGCTCTTGCCCAAATGGCAGCTGCATCCTGTGTCCAAGAAGAGAAAGAAGAAAGGCAATCCCAAGAGCCCAGTGATGCCCTAGCACAAGTGAAACTAAAAGTGGAGCAGAAACTGGAGCAGATGGGGAAGGTGCAGGGGGTGTGGCTGCACACAGCCCACGTCTTGTGCATGGATGCCATTCTCAGCGTAGGCCTGGAGATGGGAAGCCACAACCCGGACTGCTGGCCACACGTGTTCAGGGTGTGTGAGTATGTGGGTACACTGGAGCACACCCACTTCAGCGATGGTATCTCCCAGCCCCCTCTGACCATCCATCAGCCACAGAAGACATCTGGGAGCTCTGGCCTCCTTGGGGAAATTGAGTTTAAGAGCTCATCCCAGGAGCAGAGCCTGGAGCAGGGGCCTTCCCTGAACACAGCCCCTGTGGTCCAGCCACACTCCATCCAGGAGCTTGTTCGGGAATGTAGCCGTGGCCGGACCTCGGACTTCCGGGGAGGTAGTCTGAGTGGGAACAGTGCTGCCAAGGTGGTGCTCAGCCTTTCCACCCAGGCCGACAGGCTCTTTGATGACGCGACCGACAAGTTGAACTTAACAGCCTTGGGAGGGTTCCTCTACCAACTCAAAAAAGCATCTCAGTCCCAGCTTTTCCATTCGGTGACAGACACAGTCGATTACTCTCTGACAATGCCAGGTGAAGTCAAGTCTACCCAGGATCAAAAAAGCGCTCTCCACCTGTTCCGCCTGGGGGATGCCATGCTGAGGATTGTGAGGAGCAAAGCCCGGCCCCTGCTCCACGTGATGCGCTGCTGGAGCCTCGTGGCCCCGCACCTGGTGGAGGCTGCCTGCCATAAAGAACGCCATGTGTCTCAGAAGGCCGTTTCCTTCATCCATGATATCTTGACAGAGGTTCTCACTGACTGGAGTGAGCCACCTCACTTCCACTTTAACGAAGCACTCTTCCGGCCCTTTGAGCGCATCATGCAGCTAGAGCTCTGTGATGAAGATGTCCAAGACCAGGTGGTCACCTCCATTGGTGAGCTGGTTGAGGTGTGCTCTGCACAGATCCAGTCGGGATGGCGACCCCTGTTCAGTGCTCTGGAGACCGTGCGCAGTGGGAACAAGTCAGAGGTGAAGGAGTACCTGGTTGGGGACTACTCTATGGGAAAAGGCCAGGCTCCTGTGTTCGATGTGTTTGAAGCTTTTCTCAATACCGACAACATCCAGGTCTTTGCTAACGCAGCTACTAGTTACATCATGTGCCTTATGAAATTTGTCAAGGGGCTGGGGGAGGTAGACTGTAAAGAGATTGGAGACTGTGTTCCTGGAGCTGGAGCTACATCTACAGACCTGTGCCTGCCTGCCTTGGATTACCTCAGACGTTGTTCTCAGTTATTGGCCAAGATCTACAAAATGCCCTTAAAGCCAATATTCCTTAGTGGGCGACTTGCCAGTTTGCCACGAAGGCTTCAGGAGCAGTCGGCAAGCAGTGAAGATGGAATTGAATCAGTCCTGTCAGATTTTGATGATGACACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGCCAGTTTGCCACGAAG
60.32
CACAGGACACAGCAGCGTA
60.01
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGCCAGTTTGCCACGAAG
60.32
CACAGGACACAGCAGCGTAG
61.01
162
PCR template sequence:
AGTGGGCGACTTGCCAGTTTGCCACGAAGGCTTCAGGAGCAGTCGGCAAGCAGTGAAGATGGAATTGAATCAGTCCTGTCAGATTTTGATGATGACACTGCATCATGGACGGCATGACAGAAGCATGCATCAAAGGAGGCATTGAAGCCTGCTACGCTGCTGTGTCCTGTGTCTGCACCTTGCTTGGGGCTCTGGATGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
33
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-124-3p(1), mmu-miR-199a-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-221-3p(1), mmu-miR-31-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-18a-5p(1), mmu-miR-222-3p(1), mmu-miR-196a-5p(1), mmu-miR-320-3p(1), mmu-miR-324-5p(1), mmu-miR-125b-5p(1), mmu-miR-138-5p(1), mmu-miR-128-3p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-22-3p(1), mmu-miR-212-3p(1), mmu-miR-666-5p(1), mmu-miR-705(1), mmu-miR-410-3p(1), mmu-miR-484(1), mmu-miR-466b-3p(1), mmu-miR-540-3p(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGATGACACTGCATCATGGACGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARFGEF3_3113_ORF_1
1.0664
0.326951873
0.999999999
3126
ORF sequence:
ATGGACGGCATGACAGAAGCATGCATCAAAGGAGGCATTGAAGCCTGCTACGCTGCTGTGTCCTGTGTCTGCACCTTGCTTGGGGCTCTGGATGAACTCAGCCAAGGGAAAGGCTTGAATGACACTCAAGTGCAGCAGCTGCTTCTGCGCCTTGAAGAGCTGAGGGATGGGGCCGAGTCGAGCCGGGACTCCATGGAAATTAATGAGGCTGACTTCCGCTGGCAGCGGAGAGTGCTGTCTTCGGAGCACACTCCATGGGAGTCAGGCAATGAGAGGAGCCCTGACATCAGCATCAGTGTCACCACAGACACAGGCCAGACTACCTTGGAAGGAGAATTGGGTCAGACGACACCAGAGGACCACAAGAATGGGCTCAAGTCACCAGCCATTCAGGAAGGCAAGGGGACCATGGGCAAAGTGTCAGAACCTGAGGCTATAGACCAGCCAGATGTGGTTCAGAGAAGCCACACAGTCCCTTACCCCGATATCACCAACTTCCTGTCAGTGGACTGCAGGACAAGGTCCTACGGATCTAGGTATAGTGAGAGCAACTTCAGTGTAGATGACCAAGACCTGTCGAGGACTGAATTTGATTCCTGTGATCAGTATTCCATGGCGGCAGAAAAGGACTCAGGGAGGTCTGATGTGTCAGACATTGGGTCAGACAACTGTTCCCTGGCTGATGAAGAACAGACCCCTCGGGACTACATAGGCCATCGGTCCCTTCGAACCGCTGCTTTGTCTCTCAAACTGCTAAAGAACCAGGAGGCAGACCAGCACAGCGCCCGACTGTTTATACAGTCCCTTGAGGGCCTCCTACCCCGGCTGCTGGCCCTGTCCAGTGTGGAAGAGGTGGACTCCGCCCTTCAGAACTTTGCCTCTACTTTCTGCTCAGGCATGATGCACTCTCCTGGCTTTGATGGAGGCAGTAGCCTGAGCTTCCAGATGCTGATGAATGCAGACAGCTTGTACACAGCGGCACACTGTGCCCTACTGCTCAACCTGAAGCTCTCCCACGGTGACTACTACCGGAAGCGACCAACCGTGGCACCAGGCATGATGAAAGAGTTCATGAAACAGGTGCAGACCAGCGGCGTGCTCATGGTCTTCTCCCAGGCCTGGCTCGAGGAACTGTACCATCAGGTGCTGGACAGAAACATGCTGGGAGAAGCTGGCTACTGGGGCAGCCCTGAGGACAACAGCCTTCCCCTCATCACCATGCTCACCGATATCGATGGTCTAGAGAGTAGCGCAATCGGTGGCCAGTTGATGGCGTCAGCTTCAGTGGAGTCACCTTTCACCCAGAGCAGGAGACTTGATGACTCCACGGTAGCAGGTGTTGCATTTGCCCGTTATATTTTGGTTGGCTGCTGGAAGAACCTGATTGATACTCTGTCAACCCCCTTGACTGGTCGGATGGCAGGAAGCTCCAAGGGGTTGGCCTTCATCCTTGGAGCTGAGGGTATCAAAGAGCAGAACCAGAAAGAGCGAGATGCCATCTGCATGAGCCTTGATGGGCTAAGGAAAGCTGCGCGACTGAGCTGTGCACTCGGGGTCGCTGCTAACTGTGCCTCAGCTCTTGCCCAAATGGCAGCTGCATCCTGTGTCCAAGAAGAGAAAGAAGAAAGGCAATCCCAAGAGCCCAGTGATGCCCTAGCACAAGTGAAACTAAAAGTGGAGCAGAAACTGGAGCAGATGGGGAAGGTGCAGGGGGTGTGGCTGCACACAGCCCACGTCTTGTGCATGGATGCCATTCTCAGCGTAGGCCTGGAGATGGGAAGCCACAACCCGGACTGCTGGCCACACGTGTTCAGGGTGTGTGAGTATGTGGGTACACTGGAGCACACCCACTTCAGCGATGGTATCTCCCAGCCCCCTCTGACCATCCATCAGCCACAGAAGACATCTGGGAGCTCTGGCCTCCTTGGGGAAATTGAGTTTAAGAGCTCATCCCAGGAGCAGAGCCTGGAGCAGGGGCCTTCCCTGAACACAGCCCCTGTGGTCCAGCCACACTCCATCCAGGAGCTTGTTCGGGAATGTAGCCGTGGCCGGACCTCGGACTTCCGGGGAGGTAGTCTGAGTGGGAACAGTGCTGCCAAGGTGGTGCTCAGCCTTTCCACCCAGGCCGACAGGCTCTTTGATGACGCGACCGACAAGTTGAACTTAACAGCCTTGGGAGGGTTCCTCTACCAACTCAAAAAAGCATCTCAGTCCCAGCTTTTCCATTCGGTGACAGACACAGTCGATTACTCTCTGACAATGCCAGGTGAAGTCAAGTCTACCCAGGATCAAAAAAGCGCTCTCCACCTGTTCCGCCTGGGGGATGCCATGCTGAGGATTGTGAGGAGCAAAGCCCGGCCCCTGCTCCACGTGATGCGCTGCTGGAGCCTCGTGGCCCCGCACCTGGTGGAGGCTGCCTGCCATAAAGAACGCCATGTGTCTCAGAAGGCCGTTTCCTTCATCCATGATATCTTGACAGAGGTTCTCACTGACTGGAGTGAGCCACCTCACTTCCACTTTAACGAAGCACTCTTCCGGCCCTTTGAGCGCATCATGCAGCTAGAGCTCTGTGATGAAGATGTCCAAGACCAGGTGGTCACCTCCATTGGTGAGCTGGTTGAGGTGTGCTCTGCACAGATCCAGTCGGGATGGCGACCCCTGTTCAGTGCTCTGGAGACCGTGCGCAGTGGGAACAAGTCAGAGGTGAAGGAGTACCTGGTTGGGGACTACTCTATGGGAAAAGGCCAGGCTCCTGTGTTCGATGTGTTTGAAGCTTTTCTCAATACCGACAACATCCAGGTCTTTGCTAACGCAGCTACTAGTTACATCATGTGCCTTATGAAATTTGTCAAGGGGCTGGGGGAGGTAGACTGTAAAGAGATTGGAGACTGTGTTCCTGGAGCTGGAGCTACATCTACAGACCTGTGCCTGCCTGCCTTGGATTACCTCAGACGTTGTTCTCAGTTATTGGCCAAGATCTACAAAATGCCCTTAAAGCCAATATTCCTTAGTGGGCGACTTGCCAGTTTGCCACGAAGGCTTCAGGAGCAGTCGGCAAGCAGTGAAGATGGAATTGAATCAGTCCTGTCAGATTTTGATGATGACACTGCATCATGGACGGCATGA
Peptide sequence:
MDGMTEACIKGGIEACYAAVSCVCTLLGALDELSQGKGLNDTQVQQLLLRLEELRDGAESSRDSMEINEADFRWQRRVLSSEHTPWESGNERSPDISISVTTDTGQTTLEGELGQTTPEDHKNGLKSPAIQEGKGTMGKVSEPEAIDQPDVVQRSHTVPYPDITNFLSVDCRTRSYGSRYSESNFSVDDQDLSRTEFDSCDQYSMAAEKDSGRSDVSDIGSDNCSLADEEQTPRDYIGHRSLRTAALSLKLLKNQEADQHSARLFIQSLEGLLPRLLALSSVEEVDSALQNFASTFCSGMMHSPGFDGGSSLSFQMLMNADSLYTAAHCALLLNLKLSHGDYYRKRPTVAPGMMKEFMKQVQTSGVLMVFSQAWLEELYHQVLDRNMLGEAGYWGSPEDNSLPLITMLTDIDGLESSAIGGQLMASASVESPFTQSRRLDDSTVAGVAFARYILVGCWKNLIDTLSTPLTGRMAGSSKGLAFILGAEGIKEQNQKERDAICMSLDGLRKAARLSCALGVAANCASALAQMAAASCVQEEKEERQSQEPSDALAQVKLKVEQKLEQMGKVQGVWLHTAHVLCMDAILSVGLEMGSHNPDCWPHVFRVCEYVGTLEHTHFSDGISQPPLTIHQPQKTSGSSGLLGEIEFKSSSQEQSLEQGPSLNTAPVVQPHSIQELVRECSRGRTSDFRGGSLSGNSAAKVVLSLSTQADRLFDDATDKLNLTALGGFLYQLKKASQSQLFHSVTDTVDYSLTMPGEVKSTQDQKSALHLFRLGDAMLRIVRSKARPLLHVMRCWSLVAPHLVEAACHKERHVSQKAVSFIHDILTEVLTDWSEPPHFHFNEALFRPFERIMQLELCDEDVQDQVVTSIGELVEVCSAQIQSGWRPLFSALETVRSGNKSEVKEYLVGDYSMGKGQAPVFDVFEAFLNTDNIQVFANAATSYIMCLMKFVKGLGEVDCKEIGDCVPGAGATSTDLCLPALDYLRRCSQLLAKIYKMPLKPIFLSGRLASLPRRLQEQSASSEDGIESVLSDFDDDTASWTA
IRESfinder result
IRESfinder score
0.388159409
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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