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mmu_circZc3h7a_2357
Basic information of circular RNA
PanCircBase ID:
mmu_circZc3h7a_2357
mm39_Chr. Position ID:
chr16|10959526|10980543|-
Gene name:
Zc3h7a
Transcript:
ENSMUST00000037633.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
18
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,3517,3983,4704,5606,6782,7548,8932,9476,10203,11396,14357,14865,16891,17020,17303,19341,20977
Genomic length:
21017
Exon/intron sizes in nt:
109,106,134,77,182,101,197,162,187,65,205,281,34,39,81,159,198,40
Flanking exon/introns:
chr16:10958714-10959526|chr16:10980543-10982455
Splice length:
2357
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCTCCGCTGTCATATCCTGGGACCCAGGAGCAGTATGCGGTGTATTTGCATGCTCTCGTGAGAAATCTTTTTAATGAAGGAAATGATATTTATCGGGAATGTGACTGGCGTGGCTCTCTAATTCAGTACTCAGAAGCTTTGAGTATAGCTAATTATGCAAAGTCTGAAGAAATTTTAATTCCTACAGAAATCATTGAAAAACTTCGTATAAATCGTATTGCTTGCTATTCTAATATGGGCCTCCGTGATGAAGTTTTAGAAGACTGTAACGCTGTCCTCAGTGTTAATGCCAGTAACTGCAAGGCTCTGTATCGGAAGGCTAAGGCTCTAAGTGACTTAGGGCACTACAGAGAGGCCTACGACGCTGTGGCAAAGTGCTCCTTAGCAGTGCCTCAGGATGAACATGTAATAAAATTAACTCAAGAATTAGCTCAGAAATTGGGATTTAAAATAAGGAAAGCATATGTTAGAGCTGAGCACTTACTGAAAGCAGTTCCTGGGGATGGGGCTCCCAAGGCTGTGAACTATTCTGTGGAAGATATTGAGCCAGATTTGTTAGCCCCAAGGCAAGAAGCACTTTCGGTTGCCTCCCTTCCTACATCCAGTTTTTCTCATGTCATTGGGAGTGAGCTGGCCTCTGTTCCTATTATGCCGGTAACTTCTGTTTTGCAACTGCAAGTGGATGAGAGTCCTCTGCCATCCACAGTGTTTGCAAATGGAGGGAAGATCCCCTTCACCATATCCGATGCTTTTCTGGATGATGACATTGTCCTTGGGGATGAAATAGATGCTCTTCTTGATTCTGCCCCAGAAACAAATGATGCTGTTATGTCCTCCACTCTGGTCAGAGGACCCCTCCCGACTGCCAGTGCAGCTCCGAGCTTGCCCTTCAGGACACAATCCCTGCTTGGAACCTTGCCCATGGGTACAAGGTATCCTGAGCCCTCCTTTGCAGACTTTTTTCCACCTCTGACTTCATCCTTGGAAGAATTTTACTCTTCTTTAAATTCATTTTCAGTGACTGAATCCAAACGAGATCTGTGCACCTCAACTGCTAGAGAGGGAACACCGCTTAACAACAGTAATTCCTCCCTTTTACTTATGAATGGACCAGGTAATTTGTTGGCCTCTGAAAATTTTCTGGGAATTACAAGTCAGCCTAGAAATGACTTTGGAAACTTTTTTGGAAGTGTGATCGCTAAACCATTTTCATCAGGGACTCCTAGGCATCCCCTCGAAGGAACCCACGAGCTGAGGCAAGCTTGCCAGATCTGCTTTGTAAAATCAGGCCCTAAGTTAATGGATTTCACATACCATGCTAATGTAGATCATAAATGTAAGAAAGATATTTTAATTGGTAGGATAAAAAATGTTGAAGATAAATCATGGAAAAAAATACGTCCAAGACCAACAAAAACAAATTATGAAGGACCATATTATATATGCAAAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATTCAGTCGAGAGGCTTTCTTTGGGGGCAATGGAAAGATCAACCTTACTGTGGTCAGAATTCTCCAAGAGCATCATGGAGAGTTTACATTCCTTTGTGAGAAATGTTTTGATCATAAACCTAGAATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAGGTATCTCCCATGATGATATTGCTCAACAATCCAAACAATATTGGAGAAGTTTGCAAGCAAGCATGCCGGGAGTGCAGGTCCTTGGTAATCAAATAATGCCTGGATTACTTAACATGGAGATAAAGTTTGTATGTGCTCAGTGTCTGAGAAATGGCCAAGTCATTGAACCAGACAGGAACAGAAAGTACTGCAGTGCCAAAGCACAGCATTCGTGGACCAAAGAACGTCGTGCAATGAGAGCGATGTCTTTTGAACGTAAGAAGTGGATGAACATCCGTCCTCTCCCCACAAAGAAACAAATGCCTTTACAGTTTGATCTATGCAACCATATTGCTAATAGAAAAAAGTGTCAGTATGTTGGCAACTGTTCCTTTGCTCATAGTCCAGAGGAGCGGGAAGTGTGGACTTACATGAAGGATAACAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGGCAACTGTTCCTTTGC
60.13
AGATTTCTCACGAGAGCATGCA
60.09
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTGGCAACTGTTCCTTTGC
60.13
AGATTTCTCACGAGAGCATGC
58.45
140
PCR template sequence:
CATATTGCTAATAGAAAAAAGTGTCAGTATGTTGGCAACTGTTCCTTTGCTCATAGTCCAGAGGAGCGGGAAGTGTGGACTTACATGAAGGATAACAAAAGTCTCCGCTGTCATATCCTGGGACCCAGGAGCAGTATGCGGTGTATTTGCATGCTCTCGTGAGAAATCTTTTTAATGAAGGAAATGATATTTATCGGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
29
Interacting miRNAs (#binding sites)
mmu-miR-541-5p(2), mmu-miR-9-5p(1), 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-363-3p(1), mmu-miR-153-3p(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
AAGGATAACAAAAGTCTCCGCTGTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZC3H7A_2357_ORF_1
0.7134
0.002067296
0.99999205
2184
ORF sequence:
ATGGGCCTCCGTGATGAAGTTTTAGAAGACTGTAACGCTGTCCTCAGTGTTAATGCCAGTAACTGCAAGGCTCTGTATCGGAAGGCTAAGGCTCTAAGTGACTTAGGGCACTACAGAGAGGCCTACGACGCTGTGGCAAAGTGCTCCTTAGCAGTGCCTCAGGATGAACATGTAATAAAATTAACTCAAGAATTAGCTCAGAAATTGGGATTTAAAATAAGGAAAGCATATGTTAGAGCTGAGCACTTACTGAAAGCAGTTCCTGGGGATGGGGCTCCCAAGGCTGTGAACTATTCTGTGGAAGATATTGAGCCAGATTTGTTAGCCCCAAGGCAAGAAGCACTTTCGGTTGCCTCCCTTCCTACATCCAGTTTTTCTCATGTCATTGGGAGTGAGCTGGCCTCTGTTCCTATTATGCCGGTAACTTCTGTTTTGCAACTGCAAGTGGATGAGAGTCCTCTGCCATCCACAGTGTTTGCAAATGGAGGGAAGATCCCCTTCACCATATCCGATGCTTTTCTGGATGATGACATTGTCCTTGGGGATGAAATAGATGCTCTTCTTGATTCTGCCCCAGAAACAAATGATGCTGTTATGTCCTCCACTCTGGTCAGAGGACCCCTCCCGACTGCCAGTGCAGCTCCGAGCTTGCCCTTCAGGACACAATCCCTGCTTGGAACCTTGCCCATGGGTACAAGGTATCCTGAGCCCTCCTTTGCAGACTTTTTTCCACCTCTGACTTCATCCTTGGAAGAATTTTACTCTTCTTTAAATTCATTTTCAGTGACTGAATCCAAACGAGATCTGTGCACCTCAACTGCTAGAGAGGGAACACCGCTTAACAACAGTAATTCCTCCCTTTTACTTATGAATGGACCAGGTAATTTGTTGGCCTCTGAAAATTTTCTGGGAATTACAAGTCAGCCTAGAAATGACTTTGGAAACTTTTTTGGAAGTGTGATCGCTAAACCATTTTCATCAGGGACTCCTAGGCATCCCCTCGAAGGAACCCACGAGCTGAGGCAAGCTTGCCAGATCTGCTTTGTAAAATCAGGCCCTAAGTTAATGGATTTCACATACCATGCTAATGTAGATCATAAATGTAAGAAAGATATTTTAATTGGTAGGATAAAAAATGTTGAAGATAAATCATGGAAAAAAATACGTCCAAGACCAACAAAAACAAATTATGAAGGACCATATTATATATGCAAAGATGTTGCTGCAGATGATGAATGCCGATATCCTGGCCACTGTACATTTGCTTATTGCCAAGAAGAGATAGATGTGTGGACCCTGGAAAGAAAAGGGGCATTCAGTCGAGAGGCTTTCTTTGGGGGCAATGGAAAGATCAACCTTACTGTGGTCAGAATTCTCCAAGAGCATCATGGAGAGTTTACATTCCTTTGTGAGAAATGTTTTGATCATAAACCTAGAATGATAAGTAAAAGAAATAAAGATAATTCCACTGCCTGCTCTCACCCCGTCACAAAGCATGAATTTGAGGACAATAAGTGCCTTGTCCACATTTTGAGAGAGACCACAGTAAAATATTCCAAAATACGTTCTTTTCATAAACAATGTCAATTTGATATTTGTCGACATGAAGTTCGTTATGGCTGCGTGAGGGAAGATGAGTGCTTCTATGCCCATAGTCTTATTGAACTGAAAGTCTGGATAATGCAAAGTGAAAGAGGTATCTCCCATGATGATATTGCTCAACAATCCAAACAATATTGGAGAAGTTTGCAAGCAAGCATGCCGGGAGTGCAGGTCCTTGGTAATCAAATAATGCCTGGATTACTTAACATGGAGATAAAGTTTGTATGTGCTCAGTGTCTGAGAAATGGCCAAGTCATTGAACCAGACAGGAACAGAAAGTACTGCAGTGCCAAAGCACAGCATTCGTGGACCAAAGAACGTCGTGCAATGAGAGCGATGTCTTTTGAACGTAAGAAGTGGATGAACATCCGTCCTCTCCCCACAAAGAAACAAATGCCTTTACAGTTTGATCTATGCAACCATATTGCTAATAGAAAAAAGTGTCAGTATGTTGGCAACTGTTCCTTTGCTCATAGTCCAGAGGAGCGGGAAGTGTGGACTTACATGAAGGATAACAAAAGTCTCCGCTGTCATATCCTGGGACCCAGGAGCAGTATGCGGTGTATTTGCATGCTCTCGTGA
Peptide sequence:
MGLRDEVLEDCNAVLSVNASNCKALYRKAKALSDLGHYREAYDAVAKCSLAVPQDEHVIKLTQELAQKLGFKIRKAYVRAEHLLKAVPGDGAPKAVNYSVEDIEPDLLAPRQEALSVASLPTSSFSHVIGSELASVPIMPVTSVLQLQVDESPLPSTVFANGGKIPFTISDAFLDDDIVLGDEIDALLDSAPETNDAVMSSTLVRGPLPTASAAPSLPFRTQSLLGTLPMGTRYPEPSFADFFPPLTSSLEEFYSSLNSFSVTESKRDLCTSTAREGTPLNNSNSSLLLMNGPGNLLASENFLGITSQPRNDFGNFFGSVIAKPFSSGTPRHPLEGTHELRQACQICFVKSGPKLMDFTYHANVDHKCKKDILIGRIKNVEDKSWKKIRPRPTKTNYEGPYYICKDVAADDECRYPGHCTFAYCQEEIDVWTLERKGAFSREAFFGGNGKINLTVVRILQEHHGEFTFLCEKCFDHKPRMISKRNKDNSTACSHPVTKHEFEDNKCLVHILRETTVKYSKIRSFHKQCQFDICRHEVRYGCVREDECFYAHSLIELKVWIMQSERGISHDDIAQQSKQYWRSLQASMPGVQVLGNQIMPGLLNMEIKFVCAQCLRNGQVIEPDRNRKYCSAKAQHSWTKERRAMRAMSFERKKWMNIRPLPTKKQMPLQFDLCNHIANRKKCQYVGNCSFAHSPEEREVWTYMKDNKSLRCHILGPRSSMRCICMLS
IRESfinder result
IRESfinder score
0.626579466
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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