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mmu_circZc3h7a_2102
Basic information of circular RNA
PanCircBase ID:
mmu_circZc3h7a_2102
mm39_Chr. Position ID:
chr16|10963509|10979065|-
Gene name:
Zc3h7a
Transcript:
ENSMUST00000037633.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
18,17,16,15,14,13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,721,1623,2799,3565,4949,5493,6220,7413,10374,10882,12908,13037,13320,15358
Genomic length:
15556
Exon/intron sizes in nt:
1,34,77,18,21,01,19,71,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr16:10963149-10963509|chr16:10979065-10980503
Splice length:
2102
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTATTTGCATGCTCTCGTGAGAAATCTTTTTAATGAAGGAAATGATATTTATCGGGAATGTGACTGGCGTGGCTCTCTAATTCAGTACTCAGAAGCTTTGAGTATAGCTAATTATGCAAAGTCTGAAGAAATTTTAATTCCTACAGAAATCATTGAAAAACTTCGTATAAATCGTATTGCTTGCTATTCTAATATGGGCCTCCGTGATGAAGTTTTAGAAGACTGTAACGCTGTCCTCAGTGTTAATGCCAGTAACTGCAAGGCTCTGTATCGGAAGGCTAAGGCTCTAAGTGACTTAGGGCACTACAGAGAGGCCTACGACGCTGTGGCAAAGTGCTCCTTAGCAGTGCCTCAGGATGAACATGTAATAAAATTAACTCAAGAATTAGCTCAGAAATTGGGATTTAAAATAAGGAAAGCATATGTTAGAGCTGAGCACTTACTGAAAGCAGTTCCTGGGGATGGGGCTCCCAAGGCTGTGAACTATTCTGTGGAAGATATTGAGCCAGATTTGTTAGCCCCAAGGCAAGAAGCACTTTCGGTTGCCTCCCTTCCTACATCCAGTTTTTCTCATGTCATTGGGAGTGAGCTGGCCTCTGTTCCTATTATGCCGGTAACTTCTGTTTTGCAACTGCAAGTGGATGAGAGTCCTCTGCCATCCACAGTGTTTGCAAATGGAGGGAAGATCCCCTTCACCATATCCGATGCTTTTCTGGATGATGACATTGTCCTTGGGGATGAAATAGATGCTCTTCTTGATTCTGCCCCAGAAACAAATGATGCTGTTATGTCCTCCACTCTGGTCAGAGGACCCCTCCCGACTGCCAGTGCAGCTCCGAGCTTGCCCTTCAGGACACAATCCCTGCTTGGAACCTTGCCCATGGGTACAAGGTATCCTGAGCCCTCCTTTGCAGACTTTTTTCCACCTCTGACTTCATCCTTGGAAGAATTTTACTCTTCTTTAAATTCATTTTCAGTGACTGAATCCAAACGAGATCTGTGCACCTCAACTGCTAGAGAGGGAACACCGCTTAACAACAGTAATTCCTCCCTTTTACTTATGAATGGACCAGGTAATTTGTTGGCCTCTGAAAATTTTCTGGGAATTACAAGTCAGCCTAGAAATGACTTTGGAAACTTTTTTGGAAGTGTGATCGCTAAACCATTTTCATCAGGGACTCCTAGGCATCCCCTCGAAGGAACCCACGAGCTGAGGCAAGCTTGCCAGATCTGCTTTGTAAAATCAGGCCCTAAGTTAATGGATTTCACATACCATGCTAATGTAGATCATAAATGTAAGAAAGATATTTTAATTGGTAGGATAAAAAATGTTGAAGATAAATCATGGAAAAAAATACGTCCAAGACCAACAAAAACAAATTATGAAGGACCATATTATATATGCAAAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATTCAGTCGAGAGGCTTTCTTTGGGGGCAATGGAAAGATCAACCTTACTGTGGTCAGAATTCTCCAAGAGCATCATGGAGAGTTTACATTCCTTTGTGAGAAATGTTTTGATCATAAACCTAGAATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAGGTATCTCCCATGATGATATTGCTCAACAATCCAAACAATATTGGAGAAGTTTGCAAGCAAGCATGCCGGGAGTGCAGGTCCTTGGTAATCAAATAATGCCTGGATTACTTAACATGGAGATAAAGTTTGTATGTGCTCAGTGTCTGAGAAATGGCCAAGTCATTGAACCAGACAGGAACAGAAAGTACTGCAGTGCCAAAGCACAGCATTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCCAAGTCATTGAACCAGA
59.86
ATTAGAGAGCCACGCCAGTC
59.54
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGTGTCTGAGAAATGGCCA
59.3
CGCCAGTCACATTCCCGATA
59.9
146
PCR template sequence:
ACATGGAGATAAAGTTTGTATGTGCTCAGTGTCTGAGAAATGGCCAAGTCATTGAACCAGACAGGAACAGAAAGTACTGCAGTGCCAAAGCACAGCATTCGTGTATTTGCATGCTCTCGTGAGAAATCTTTTTAATGAAGGAAATGATATTTATCGGGAATGTGACTGGCGTGGCTCTCTAATTCAGTACTCAGAAGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
Interacting miRNAs (#binding sites)
mmu-miR-541-5p(2), mmu-miR-23b-3p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-34c-5p(1), mmu-miR-298-5p(1), mmu-miR-320-3p(1), mmu-miR-324-5p(1), mmu-miR-23a-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-676-3p(1), mmu-miR-96-5p(1), mmu-miR-182-5p(1), mmu-miR-34b-5p(1), mmu-miR-224-5p(1), mmu-miR-384-3p(1), mmu-miR-673-5p(1), mmu-miR-5101(1), mmu-miR-3065-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGCACAGCATTCGTGTATTTGCATG
siRNA sets
CATGCAAATACACGAATGC, ATACACGAATGCTGTGCTT, AATACACGAATGCTGTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZC3H7A_2102_ORF_1
0.7529
-0.011887103
0.999951333
1929
ORF sequence:
ATGGGCCTCCGTGATGAAGTTTTAGAAGACTGTAACGCTGTCCTCAGTGTTAATGCCAGTAACTGCAAGGCTCTGTATCGGAAGGCTAAGGCTCTAAGTGACTTAGGGCACTACAGAGAGGCCTACGACGCTGTGGCAAAGTGCTCCTTAGCAGTGCCTCAGGATGAACATGTAATAAAATTAACTCAAGAATTAGCTCAGAAATTGGGATTTAAAATAAGGAAAGCATATGTTAGAGCTGAGCACTTACTGAAAGCAGTTCCTGGGGATGGGGCTCCCAAGGCTGTGAACTATTCTGTGGAAGATATTGAGCCAGATTTGTTAGCCCCAAGGCAAGAAGCACTTTCGGTTGCCTCCCTTCCTACATCCAGTTTTTCTCATGTCATTGGGAGTGAGCTGGCCTCTGTTCCTATTATGCCGGTAACTTCTGTTTTGCAACTGCAAGTGGATGAGAGTCCTCTGCCATCCACAGTGTTTGCAAATGGAGGGAAGATCCCCTTCACCATATCCGATGCTTTTCTGGATGATGACATTGTCCTTGGGGATGAAATAGATGCTCTTCTTGATTCTGCCCCAGAAACAAATGATGCTGTTATGTCCTCCACTCTGGTCAGAGGACCCCTCCCGACTGCCAGTGCAGCTCCGAGCTTGCCCTTCAGGACACAATCCCTGCTTGGAACCTTGCCCATGGGTACAAGGTATCCTGAGCCCTCCTTTGCAGACTTTTTTCCACCTCTGACTTCATCCTTGGAAGAATTTTACTCTTCTTTAAATTCATTTTCAGTGACTGAATCCAAACGAGATCTGTGCACCTCAACTGCTAGAGAGGGAACACCGCTTAACAACAGTAATTCCTCCCTTTTACTTATGAATGGACCAGGTAATTTGTTGGCCTCTGAAAATTTTCTGGGAATTACAAGTCAGCCTAGAAATGACTTTGGAAACTTTTTTGGAAGTGTGATCGCTAAACCATTTTCATCAGGGACTCCTAGGCATCCCCTCGAAGGAACCCACGAGCTGAGGCAAGCTTGCCAGATCTGCTTTGTAAAATCAGGCCCTAAGTTAATGGATTTCACATACCATGCTAATGTAGATCATAAATGTAAGAAAGATATTTTAATTGGTAGGATAAAAAATGTTGAAGATAAATCATGGAAAAAAATACGTCCAAGACCAACAAAAACAAATTATGAAGGACCATATTATATATGCAAAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATTCAGTCGAGAGGCTTTCTTTGGGGGCAATGGAAAGATCAACCTTACTGTGGTCAGAATTCTCCAAGAGCATCATGGAGAGTTTACATTCCTTTGTGAGAAATGTTTTGATCATAAACCTAGAATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAGGTATCTCCCATGATGATATTGCTCAACAATCCAAACAATATTGGAGAAGTTTGCAAGCAAGCATGCCGGGAGTGCAGGTCCTTGGTAATCAAATAATGCCTGGATTACTTAACATGGAGATAAAGTTTGTATGTGCTCAGTGTCTGAGAAATGGCCAAGTCATTGAACCAGACAGGAACAGAAAGTACTGCAGTGCCAAAGCACAGCATTCGTGTATTTGCATGCTCTCGTGA
Peptide sequence:
MGLRDEVLEDCNAVLSVNASNCKALYRKAKALSDLGHYREAYDAVAKCSLAVPQDEHVIKLTQELAQKLGFKIRKAYVRAEHLLKAVPGDGAPKAVNYSVEDIEPDLLAPRQEALSVASLPTSSFSHVIGSELASVPIMPVTSVLQLQVDESPLPSTVFANGGKIPFTISDAFLDDDIVLGDEIDALLDSAPETNDAVMSSTLVRGPLPTASAAPSLPFRTQSLLGTLPMGTRYPEPSFADFFPPLTSSLEEFYSSLNSFSVTESKRDLCTSTAREGTPLNNSNSSLLLMNGPGNLLASENFLGITSQPRNDFGNFFGSVIAKPFSSGTPRHPLEGTHELRQACQICFVKSGPKLMDFTYHANVDHKCKKDILIGRIKNVEDKSWKKIRPRPTKTNYEGPYYICKDVAADDECRYPGHCTFAYCQEEIDVWTLERKGAFSREAFFGGNGKINLTVVRILQEHHGEFTFLCEKCFDHKPRMISKRNKDNSTACSHPVTKHEFEDNKCLVHILRETTVKYSKIRSFHKQCQFDICRHEVRYGCVREDECFYAHSLIELKVWIMQSERGISHDDIAQQSKQYWRSLQASMPGVQVLGNQIMPGLLNMEIKFVCAQCLRNGQVIEPDRNRKYCSAKAQHSCICMLS
IRESfinder result
IRESfinder score
0.650830301
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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