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mmu_circCntn1_1881
Basic information of circular RNA
PanCircBase ID:
mmu_circCntn1_1881
mm39_Chr. Position ID:
chr15|92114196|92169235|+
Gene name:
Cntn1
Transcript:
ENSMUST00000169825.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13,14,15
Exon/intron offsets:
0,4131,12307,15785,18109,26575,29412,29645,34543,36081,37594,39531,45157,54918
Genomic length:
55039
Exon/intron sizes in nt:
132,33,133,173,96,207,100,182,125,118,151,128,182,121
Flanking exon/introns:
chr15:91949204-92114196|chr15:92169235-92189488
Splice length:
1881
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34314, circAtlas: mmu-Cntn1_0005
circBase: hsa_circ_0098524, circAtlas: hsa-CNTN1_0002, CIRCpedia: HSA_CIRCpedia_119071
Human Ortholog IDs:
Mature spliced Sequence:
GTCTTTCATAGTACTCAACTGCCATAAAGCTTTCATTACTTTTGGAAACTGACCCATCTATTCAACAAAAGATGAAAATGCCATTGCTGGTCAGCCATCTCCTGCTAATCTCCTTAACATCTTGTCTAGGAGACTTTACCTGGCACAGAAGATATGGTCATGGAGTGTCTGAGGAGGACAAAGGATTTGGGCCCATTTTTGAAGAGCAGCCAATCAATACCATTTACCCAGAAGAGTCACTGGAAGGAAAAGTGTCACTCAACTGCCGGGCACGCGCCAGCCCATTTCCAGTTTACAAATGGAGAATGAATAACGGGGACGTGGACCTGACAAACGATCGGTACAGTATGGTCGGAGGAAACCTTGTTATCAACAACCCGGACAAACAGAAAGACGCTGGGGTGTACTACTGCCTGGCATCCAACAACTACGGAATGGTCAGGAGCACGGAGGCAACTCTGAGCTTCGGGTATCTCGACCCCTTTCCTCCCGAGGAGCGTCCGGAAGTGAAGGTGAAGGAAGGGAAGGGCATGGTGCTTCTCTGTGATCCTCCCTACCACTTCCCAGATGATCTTAGCTACCGCTGGCTTCTGAATGAATTTCCTGTATTTATCACCATGGATAAGCGAAGATTTGTGTCTCAGACCAACGGCAATCTCTACATCGCAAATGTCGAGTCTTCTGACAGAGGCAACTACTCCTGCTTTGTGTCCAGTCCTTCTATTACAAAGAGTGTGTTCAGCAAGTTTATTCCCCTCATTCCGATTCCTGAACGAACAACAAAGCCATATCCTGCTGATATTGTGGTGCAGTTCAAGGACATATACACCATGATGGGCCAAAATGTGACTTTAGAGTGTTTCGCTCTAGGGAACCCTGTTCCTGATATCCGGTGGCGGAAGGTGCTAGAACCAATGCCCAGCACTGCTGAGATAAGCACGTCAGGGGCTGTCCTCAAGATCTTCAACATCCAGCTAGAAGATGAAGGCCTCTACGAGTGTGAGGCTGAGAACATCCGGGGAAAGGACAAGCACCAGGCAAGAATCTATGTTCAAGCGTTTCCTGAGTGGGTAGAGCATATCAATGACACTGAGGTGGACATAGGCAGTGACCTCTACTGGCCTTGCATAGCCACAGGGAAGCCCATTCCTACCATCAGGTGGCTGAAAAATGGATACTCGTATCACAAAGGGGAACTGAGACTGTATGATGTGACTTTTGAAAATGCCGGGATGTACCAGTGCATAGCAGAAAACGCGTATGGGTCCATTTATGCCAACGCTGAGCTCAAGATCCTGGCTTTAGCTCCAACTTTTGAAATGAATCCTATGAAGAAAAAGATCTTGGCTGCGAAAGGTGGAAGGGTTATCATTGAATGTAAACCCAAGGCCGCACCAAAACCCAAGTTTTCATGGAGCAAAGGGACGGAGTGGCTCGTTAACAGCAGCAGAATACTCATATGGGAAGATGGTAGCTTGGAAATCAATAATATTACAAGAAATGATGGTGGAATCTATACATGCTTTGCAGAAAATAACAGAGGAAAAGCTAATAGCACTGGGACTCTGGTGATCACAAATCCCACACGAATTATTTTGGCCCCAATCAATGCTGACATCACTGTTGGGGAAAATGCCACCATGCAGTGTGCTGCGTCTTTCGATCCTGCCTTGGACCTCACGTTTGTGTGGTCCTTCAATGGCTACGTGATTGACTTTAACAAGGAAATTACGCATATCCATTACCAGAGGAATTTTATGCTCGACGCCAATGGGGAACTGCTCATCCGAAATGCGCAGCTGAAACACGCAGGCCGGTACACGTGCACGGCGCAGACAATCGTGGACAATTCCTCGGCTTCCGCTGACCTTGTCGTTCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAGACAATCGTGGACAAT
58.92
TGACCAGCAATGGCATTTTCA
59.03
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAGACAATCGTGGACAAT
58.92
CTGACCAGCAATGGCATTTTCA
60.03
145
PCR template sequence:
CTCATCCGAAATGCGCAGCTGAAACACGCAGGCCGGTACACGTGCACGGCGCAGACAATCGTGGACAATTCCTCGGCTTCCGCTGACCTTGTCGTTCGAGGTCTTTCATAGTACTCAACTGCCATAAAGCTTTCATTACTTTTGGAAACTGACCCATCTATTCAACAAAAGATGAAAATGCCATTGCTGGTCAGCCATCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-375-3p(1), mmu-miR-181a-5p(1), mmu-miR-135a-5p(1), mmu-miR-223-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-224-5p(1), mmu-miR-300-3p(1), mmu-miR-335-3p(1), mmu-miR-1904(1), mmu-miR-544-5p(1), mmu-miR-376a-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTGTCGTTCGAGGTCTTTCATAGTA
siRNA sets
ATGAAAGACCTCGAACGAC, TATGAAAGACCTCGAACGA, CTATGAAAGACCTCGAACG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNTN1_1881_ORF_1
1.1325
0.268562027
0.999983531
1821
ORF sequence:
ATGAAAATGCCATTGCTGGTCAGCCATCTCCTGCTAATCTCCTTAACATCTTGTCTAGGAGACTTTACCTGGCACAGAAGATATGGTCATGGAGTGTCTGAGGAGGACAAAGGATTTGGGCCCATTTTTGAAGAGCAGCCAATCAATACCATTTACCCAGAAGAGTCACTGGAAGGAAAAGTGTCACTCAACTGCCGGGCACGCGCCAGCCCATTTCCAGTTTACAAATGGAGAATGAATAACGGGGACGTGGACCTGACAAACGATCGGTACAGTATGGTCGGAGGAAACCTTGTTATCAACAACCCGGACAAACAGAAAGACGCTGGGGTGTACTACTGCCTGGCATCCAACAACTACGGAATGGTCAGGAGCACGGAGGCAACTCTGAGCTTCGGGTATCTCGACCCCTTTCCTCCCGAGGAGCGTCCGGAAGTGAAGGTGAAGGAAGGGAAGGGCATGGTGCTTCTCTGTGATCCTCCCTACCACTTCCCAGATGATCTTAGCTACCGCTGGCTTCTGAATGAATTTCCTGTATTTATCACCATGGATAAGCGAAGATTTGTGTCTCAGACCAACGGCAATCTCTACATCGCAAATGTCGAGTCTTCTGACAGAGGCAACTACTCCTGCTTTGTGTCCAGTCCTTCTATTACAAAGAGTGTGTTCAGCAAGTTTATTCCCCTCATTCCGATTCCTGAACGAACAACAAAGCCATATCCTGCTGATATTGTGGTGCAGTTCAAGGACATATACACCATGATGGGCCAAAATGTGACTTTAGAGTGTTTCGCTCTAGGGAACCCTGTTCCTGATATCCGGTGGCGGAAGGTGCTAGAACCAATGCCCAGCACTGCTGAGATAAGCACGTCAGGGGCTGTCCTCAAGATCTTCAACATCCAGCTAGAAGATGAAGGCCTCTACGAGTGTGAGGCTGAGAACATCCGGGGAAAGGACAAGCACCAGGCAAGAATCTATGTTCAAGCGTTTCCTGAGTGGGTAGAGCATATCAATGACACTGAGGTGGACATAGGCAGTGACCTCTACTGGCCTTGCATAGCCACAGGGAAGCCCATTCCTACCATCAGGTGGCTGAAAAATGGATACTCGTATCACAAAGGGGAACTGAGACTGTATGATGTGACTTTTGAAAATGCCGGGATGTACCAGTGCATAGCAGAAAACGCGTATGGGTCCATTTATGCCAACGCTGAGCTCAAGATCCTGGCTTTAGCTCCAACTTTTGAAATGAATCCTATGAAGAAAAAGATCTTGGCTGCGAAAGGTGGAAGGGTTATCATTGAATGTAAACCCAAGGCCGCACCAAAACCCAAGTTTTCATGGAGCAAAGGGACGGAGTGGCTCGTTAACAGCAGCAGAATACTCATATGGGAAGATGGTAGCTTGGAAATCAATAATATTACAAGAAATGATGGTGGAATCTATACATGCTTTGCAGAAAATAACAGAGGAAAAGCTAATAGCACTGGGACTCTGGTGATCACAAATCCCACACGAATTATTTTGGCCCCAATCAATGCTGACATCACTGTTGGGGAAAATGCCACCATGCAGTGTGCTGCGTCTTTCGATCCTGCCTTGGACCTCACGTTTGTGTGGTCCTTCAATGGCTACGTGATTGACTTTAACAAGGAAATTACGCATATCCATTACCAGAGGAATTTTATGCTCGACGCCAATGGGGAACTGCTCATCCGAAATGCGCAGCTGAAACACGCAGGCCGGTACACGTGCACGGCGCAGACAATCGTGGACAATTCCTCGGCTTCCGCTGACCTTGTCGTTCGAGGTCTTTCATAG
Peptide sequence:
MKMPLLVSHLLLISLTSCLGDFTWHRRYGHGVSEEDKGFGPIFEEQPINTIYPEESLEGKVSLNCRARASPFPVYKWRMNNGDVDLTNDRYSMVGGNLVINNPDKQKDAGVYYCLASNNYGMVRSTEATLSFGYLDPFPPEERPEVKVKEGKGMVLLCDPPYHFPDDLSYRWLLNEFPVFITMDKRRFVSQTNGNLYIANVESSDRGNYSCFVSSPSITKSVFSKFIPLIPIPERTTKPYPADIVVQFKDIYTMMGQNVTLECFALGNPVPDIRWRKVLEPMPSTAEISTSGAVLKIFNIQLEDEGLYECEAENIRGKDKHQARIYVQAFPEWVEHINDTEVDIGSDLYWPCIATGKPIPTIRWLKNGYSYHKGELRLYDVTFENAGMYQCIAENAYGSIYANAELKILALAPTFEMNPMKKKILAAKGGRVIIECKPKAAPKPKFSWSKGTEWLVNSSRILIWEDGSLEINNITRNDGGIYTCFAENNRGKANSTGTLVITNPTRIILAPINADITVGENATMQCAASFDPALDLTFVWSFNGYVIDFNKEITHIHYQRNFMLDANGELLIRNAQLKHAGRYTCTAQTIVDNSSASADLVVRGLS
IRESfinder result
IRESfinder score
0.492137881
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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