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mmu_circMindy2_903
Basic information of circular RNA
PanCircBase ID:
mmu_circMindy2_903
mm39_Chr. Position ID:
chr9|70514739|70552228|-
Gene name:
Mindy2
Transcript:
ENSMUST00000049031.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,3371,9306,19297,23538,26547,37431
Genomic length:
37489
Exon/intron sizes in nt:
201,174,143,103,159,65,58
Flanking exon/introns:
chr9:70512571-70514739|chr9:70552228-70563554
Splice length:
903
Other database IDs:
circBase: mmu_circ_0015845, CIRCpedia: MMU_CIRCpedia_220272, circAtlas: mmu-Fam63b_0004
circAtlas: hsa-FAM63B_0009
Human Ortholog IDs:
Mature spliced Sequence:
GTGAAACTTCCACCAATGATGGAAATCATAACTGCGGAGCAGCTGATGGAATATTTAGGTGATTATATGCTTGAGGCAAAGCCAAAAGAAATATCAGAAATTCAACGTGTAAATTATGAACAGAATATGAGTGATGCTATGGCAATCTTGCACAAACTGCAGACAGGCCTGGACGTGAATGTCAGGTTCACTGGGGTACGAGTTTTCGAGTACACGCCAGAGTGCATAGTCTTTGATCTTCTAGATATTCCTTTGTATCATGGGTGGTTAGTGGACCCTCAGATTGATGACATTGTAAAAGCTGTTGGCAACTGCAGCTACAACCAGCTGGTAGAGAAGATCATCTCCTGTAAGCAGTCAGACAACAGCCAGTTGGTTAGTGAAGGCTTTGTAGCTGAGCAGTTTCTAAACAATACAGCCACTCAACTGACGTACCATGGATTATGTGAACTGACTTCAACGGTTCAGGAAGGAGAGCTCTGTGTGTTCTTTCGGAATAATCATTTTAGCACCATGACAAAATACAAGGGTCAACTGTATTTGTTGGTAACAGACCAAGGGTTTCTTACTGAAGAAAAAATTGTCTGGGAAAGCCTCCACAATGTAGATGGTGATGGAAATTTCTGTGACTCAGAATTCCACCTTCGGCCTCCTTCAGATCCTGAGACTGTATACAAAGGTCAACAAGACCAAATAGATCAGGACTACCTTATGGCACTGTCACTGCAACAAGAACAGCAGAGCCAAGAAATCAATTGGGAGCAAATTCCAGAAGGAATCAGTGACTTGGAGCTGGCAAAGAAACTCCAGGAAGAGGAGGACCGACGGGCCTCTCAGTACTACCAGGAGCAGGAGCAGGCTCAGGCTGTTGTGACTACCACCACCCCTTCCACACAGGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGAAGAGGAGGACCGA
60
TATTCCATCAGCTGCTCCGC
60.25
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGGAAGAGGAGGACCG
60
TATTCCATCAGCTGCTCCGC
60.25
151
PCR template sequence:
ACTCCAGGAAGAGGAGGACCGACGGGCCTCTCAGTACTACCAGGAGCAGGAGCAGGCTCAGGCTGTTGTGACTACCACCACCCCTTCCACACAGGCCCAGGTGAAACTTCCACCAATGATGGAAATCATAACTGCGGAGCAGCTGATGGAATATTTAGGTGATTATATGCTTGAGGCAAAGCCAAAAGAAATATCAGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-196a-5p(1), mmu-miR-382-3p(1), mmu-miR-224-5p(1), mmu-miR-705(1), mmu-miR-452-3p(1), mmu-miR-3065-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACACAGGCCCAGGTGAAACTTCCAC
siRNA sets
TGGAAGTTTCACCTGGGCC, TTTCACCTGGGCCTGTGTG, GAAGTTTCACCTGGGCCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMINDY2_903_ORF_1
1.1528
0.215781653
0.999976657
1791
ORF sequence:
ATGATGGAAATCATAACTGCGGAGCAGCTGATGGAATATTTAGGTGATTATATGCTTGAGGCAAAGCCAAAAGAAATATCAGAAATTCAACGTGTAAATTATGAACAGAATATGAGTGATGCTATGGCAATCTTGCACAAACTGCAGACAGGCCTGGACGTGAATGTCAGGTTCACTGGGGTACGAGTTTTCGAGTACACGCCAGAGTGCATAGTCTTTGATCTTCTAGATATTCCTTTGTATCATGGGTGGTTAGTGGACCCTCAGATTGATGACATTGTAAAAGCTGTTGGCAACTGCAGCTACAACCAGCTGGTAGAGAAGATCATCTCCTGTAAGCAGTCAGACAACAGCCAGTTGGTTAGTGAAGGCTTTGTAGCTGAGCAGTTTCTAAACAATACAGCCACTCAACTGACGTACCATGGATTATGTGAACTGACTTCAACGGTTCAGGAAGGAGAGCTCTGTGTGTTCTTTCGGAATAATCATTTTAGCACCATGACAAAATACAAGGGTCAACTGTATTTGTTGGTAACAGACCAAGGGTTTCTTACTGAAGAAAAAATTGTCTGGGAAAGCCTCCACAATGTAGATGGTGATGGAAATTTCTGTGACTCAGAATTCCACCTTCGGCCTCCTTCAGATCCTGAGACTGTATACAAAGGTCAACAAGACCAAATAGATCAGGACTACCTTATGGCACTGTCACTGCAACAAGAACAGCAGAGCCAAGAAATCAATTGGGAGCAAATTCCAGAAGGAATCAGTGACTTGGAGCTGGCAAAGAAACTCCAGGAAGAGGAGGACCGACGGGCCTCTCAGTACTACCAGGAGCAGGAGCAGGCTCAGGCTGTTGTGACTACCACCACCCCTTCCACACAGGCCCAGGTGAAACTTCCACCAATGATGGAAATCATAACTGCGGAGCAGCTGATGGAATATTTAGGTGATTATATGCTTGAGGCAAAGCCAAAAGAAATATCAGAAATTCAACGTGTAAATTATGAACAGAATATGAGTGATGCTATGGCAATCTTGCACAAACTGCAGACAGGCCTGGACGTGAATGTCAGGTTCACTGGGGTACGAGTTTTCGAGTACACGCCAGAGTGCATAGTCTTTGATCTTCTAGATATTCCTTTGTATCATGGGTGGTTAGTGGACCCTCAGATTGATGACATTGTAAAAGCTGTTGGCAACTGCAGCTACAACCAGCTGGTAGAGAAGATCATCTCCTGTAAGCAGTCAGACAACAGCCAGTTGGTTAGTGAAGGCTTTGTAGCTGAGCAGTTTCTAAACAATACAGCCACTCAACTGACGTACCATGGATTATGTGAACTGACTTCAACGGTTCAGGAAGGAGAGCTCTGTGTGTTCTTTCGGAATAATCATTTTAGCACCATGACAAAATACAAGGGTCAACTGTATTTGTTGGTAACAGACCAAGGGTTTCTTACTGAAGAAAAAATTGTCTGGGAAAGCCTCCACAATGTAGATGGTGATGGAAATTTCTGTGACTCAGAATTCCACCTTCGGCCTCCTTCAGATCCTGAGACTGTATACAAAGGTCAACAAGACCAAATAGATCAGGACTACCTTATGGCACTGTCACTGCAACAAGAACAGCAGAGCCAAGAAATCAATTGGGAGCAAATTCCAGAAGGAATCAGTGACTTGGAGCTGGCAAAGAAACTCCAGGAAGAGGAGGACCGACGGGCCTCTCAGTACTACCAGGAGCAGGAGCAGGCTCAGGCTGTTGTGACTACCACCACCCCTTCCACACAGGCCCAG
Peptide sequence:
MMEIITAEQLMEYLGDYMLEAKPKEISEIQRVNYEQNMSDAMAILHKLQTGLDVNVRFTGVRVFEYTPECIVFDLLDIPLYHGWLVDPQIDDIVKAVGNCSYNQLVEKIISCKQSDNSQLVSEGFVAEQFLNNTATQLTYHGLCELTSTVQEGELCVFFRNNHFSTMTKYKGQLYLLVTDQGFLTEEKIVWESLHNVDGDGNFCDSEFHLRPPSDPETVYKGQQDQIDQDYLMALSLQQEQQSQEINWEQIPEGISDLELAKKLQEEEDRRASQYYQEQEQAQAVVTTTTPSTQAQVKLPPMMEIITAEQLMEYLGDYMLEAKPKEISEIQRVNYEQNMSDAMAILHKLQTGLDVNVRFTGVRVFEYTPECIVFDLLDIPLYHGWLVDPQIDDIVKAVGNCSYNQLVEKIISCKQSDNSQLVSEGFVAEQFLNNTATQLTYHGLCELTSTVQEGELCVFFRNNHFSTMTKYKGQLYLLVTDQGFLTEEKIVWESLHNVDGDGNFCDSEFHLRPPSDPETVYKGQQDQIDQDYLMALSLQQEQQSQEINWEQIPEGISDLELAKKLQEEEDRRASQYYQEQEQAQAVVTTTTPSTQAQ
IRESfinder result
IRESfinder score
0.485908893
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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