top of page
mmu_circDip2c_972
Basic information of circular RNA
PanCircBase ID:
mmu_circDip2c_972
mm39_Chr. Position ID:
chr13|9543140|9603507|+
Gene name:
Dip2c
Transcript:
ENSMUST00000174552.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,13474,40147,43551,57079,58641,60169
Genomic length:
60367
Exon/intron sizes in nt:
72,111,126,210,135,120,198
Flanking exon/introns:
chr13:9327102-9543140|chr13:9603507-9610706
Splice length:
972
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34984, circAtlas: mmu-Dip2c_0007
circAtlas: hsa-DIP2C_0006, CIRCpedia: HSA_CIRCpedia_367918
Human Ortholog IDs:
Mature spliced Sequence:
GTGACATTACACAAAAGGGATATGAAAAGAAGAGGTCAAAATTAATTGGAGCCTACCTTCCCCAGCCTCCAAGAGTGGACCAAGCTCTGCCTCAAGAGCGACGGGCGCCTGTCACTCCTTCCTCAGCTTCTCGATACCACCGCCGAAGGTCCTCAGGGTCTCGAGATGAACGTTATCGGTCAGATGTTCATACAGAAGCTGTCCAGGCAGCTCTTGCTAAACACAAAGAAAGGAAAATGGCAGTACCTATGCCTTCCAAACGAAGATCCCTGGTTGTACAGACCTCCATGGATGCCTACACTCCCCCAGATACCTCTTCCGGTTCAGAAGATGAAGGCTCAGTACAGGGTGATTCCCAGGGAACCCCCACTTCTAGCCAGGGCAGCATCAACATGGAGCATTGGATCAGCCAGGCCATCCATGGCTCTACCACATCAACAACCTCCTCCTCCTCCACGCAGAGTGGGGGCAGTGGGGCAGCACACCGGCTGGCAGATGTCATGGCCCAGACACACATAGAAAATCATTCTGCACCTCCTGATGTAACCACCTACACCTCAGAACACTCAATACAAGTGGAAAGGCCGCAGGGCTCCACCACATCCCGGACAGCACCAAAGTATGGCAATGCTGAGCTCATGGAGACTGGGGATGGTGTACCAGTAAGTAGCCGGGTATCAGCAAAAATTCAGCAGCTTGTCAATACCCTTAAACGACCGAAGCGGCCACCATTACGGGAATTCTTTGTTGATGACTTTGAAGAATTGTTAGAAGTTCAACAACCAGATCCAAACCAACCAAAGCCAGAGGGCGCCCAGATGCTGGCCACAAGAGGGGAGCAGTTGGGAGTCGTCACAAACTGGCCACCCTCTTTAGAAGCTGCACTACAACGATGGGGGACCATCTCCCCGAAGGCCCCCTGCCTGACCACCATGGACACAAATGGAAAGCCCCTGTACATCCTCACTTATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGACCACCATGGACACAA
59.89
GCAGAGCTTGGTCCACTCTT
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGACCACCATGGACACAA
59.89
TCTTGAGGCAGAGCTTGGTC
59.68
147
PCR template sequence:
TTAGAAGCTGCACTACAACGATGGGGGACCATCTCCCCGAAGGCCCCCTGCCTGACCACCATGGACACAAATGGAAAGCCCCTGTACATCCTCACTTATGGTGACATTACACAAAAGGGATATGAAAAGAAGAGGTCAAAATTAATTGGAGCCTACCTTCCCCAGCCTCCAAGAGTGGACCAAGCTCTGCCTCAAGAGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-122-5p(1), mmu-miR-205-5p(1), mmu-miR-709(1), mmu-miR-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-324-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCCTCACTTATGGTGACATTACACA
siRNA sets
TGTAATGTCACCATAAGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDIP2C_972_ORF_1
0.8104
0.237097052
0.999925613
1707
ORF sequence:
ATGGCAGTACCTATGCCTTCCAAACGAAGATCCCTGGTTGTACAGACCTCCATGGATGCCTACACTCCCCCAGATACCTCTTCCGGTTCAGAAGATGAAGGCTCAGTACAGGGTGATTCCCAGGGAACCCCCACTTCTAGCCAGGGCAGCATCAACATGGAGCATTGGATCAGCCAGGCCATCCATGGCTCTACCACATCAACAACCTCCTCCTCCTCCACGCAGAGTGGGGGCAGTGGGGCAGCACACCGGCTGGCAGATGTCATGGCCCAGACACACATAGAAAATCATTCTGCACCTCCTGATGTAACCACCTACACCTCAGAACACTCAATACAAGTGGAAAGGCCGCAGGGCTCCACCACATCCCGGACAGCACCAAAGTATGGCAATGCTGAGCTCATGGAGACTGGGGATGGTGTACCAGTAAGTAGCCGGGTATCAGCAAAAATTCAGCAGCTTGTCAATACCCTTAAACGACCGAAGCGGCCACCATTACGGGAATTCTTTGTTGATGACTTTGAAGAATTGTTAGAAGTTCAACAACCAGATCCAAACCAACCAAAGCCAGAGGGCGCCCAGATGCTGGCCACAAGAGGGGAGCAGTTGGGAGTCGTCACAAACTGGCCACCCTCTTTAGAAGCTGCACTACAACGATGGGGGACCATCTCCCCGAAGGCCCCCTGCCTGACCACCATGGACACAAATGGAAAGCCCCTGTACATCCTCACTTATGGTGACATTACACAAAAGGGATATGAAAAGAAGAGGTCAAAATTAATTGGAGCCTACCTTCCCCAGCCTCCAAGAGTGGACCAAGCTCTGCCTCAAGAGCGACGGGCGCCTGTCACTCCTTCCTCAGCTTCTCGATACCACCGCCGAAGGTCCTCAGGGTCTCGAGATGAACGTTATCGGTCAGATGTTCATACAGAAGCTGTCCAGGCAGCTCTTGCTAAACACAAAGAAAGGAAAATGGCAGTACCTATGCCTTCCAAACGAAGATCCCTGGTTGTACAGACCTCCATGGATGCCTACACTCCCCCAGATACCTCTTCCGGTTCAGAAGATGAAGGCTCAGTACAGGGTGATTCCCAGGGAACCCCCACTTCTAGCCAGGGCAGCATCAACATGGAGCATTGGATCAGCCAGGCCATCCATGGCTCTACCACATCAACAACCTCCTCCTCCTCCACGCAGAGTGGGGGCAGTGGGGCAGCACACCGGCTGGCAGATGTCATGGCCCAGACACACATAGAAAATCATTCTGCACCTCCTGATGTAACCACCTACACCTCAGAACACTCAATACAAGTGGAAAGGCCGCAGGGCTCCACCACATCCCGGACAGCACCAAAGTATGGCAATGCTGAGCTCATGGAGACTGGGGATGGTGTACCAGTAAGTAGCCGGGTATCAGCAAAAATTCAGCAGCTTGTCAATACCCTTAAACGACCGAAGCGGCCACCATTACGGGAATTCTTTGTTGATGACTTTGAAGAATTGTTAGAAGTTCAACAACCAGATCCAAACCAACCAAAGCCAGAGGGCGCCCAGATGCTGGCCACAAGAGGGGAGCAGTTGGGAGTCGTCACAAACTGGCCACCCTCTTTAGAAGCTGCACTACAACGATGGGGGACCATCTCCCCGAAGGCCCCCTGCCTGACCACCATGGACACAAATGGAAAGCCCCTGTACATCCTCACTTAT
Peptide sequence:
MAVPMPSKRRSLVVQTSMDAYTPPDTSSGSEDEGSVQGDSQGTPTSSQGSINMEHWISQAIHGSTTSTTSSSSTQSGGSGAAHRLADVMAQTHIENHSAPPDVTTYTSEHSIQVERPQGSTTSRTAPKYGNAELMETGDGVPVSSRVSAKIQQLVNTLKRPKRPPLREFFVDDFEELLEVQQPDPNQPKPEGAQMLATRGEQLGVVTNWPPSLEAALQRWGTISPKAPCLTTMDTNGKPLYILTYGDITQKGYEKKRSKLIGAYLPQPPRVDQALPQERRAPVTPSSASRYHRRRSSGSRDERYRSDVHTEAVQAALAKHKERKMAVPMPSKRRSLVVQTSMDAYTPPDTSSGSEDEGSVQGDSQGTPTSSQGSINMEHWISQAIHGSTTSTTSSSSTQSGGSGAAHRLADVMAQTHIENHSAPPDVTTYTSEHSIQVERPQGSTTSRTAPKYGNAELMETGDGVPVSSRVSAKIQQLVNTLKRPKRPPLREFFVDDFEELLEVQQPDPNQPKPEGAQMLATRGEQLGVVTNWPPSLEAALQRWGTISPKAPCLTTMDTNGKPLYILTY
IRESfinder result
IRESfinder score
0.384728907
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page