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mmu_circNcam1_1746
Basic information of circular RNA
PanCircBase ID:
mmu_circNcam1_1746
mm39_Chr. Position ID:
chr9|49454310|49481200|-
Gene name:
Ncam1
Transcript:
ENSMUST00000193547.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1640,2142,2588,3147,14085,21858,22458,23664,24326,25320,26815
Genomic length:
26890
Exon/intron sizes in nt:
132,171,97,185,151,143,173,118,138,144,219,75
Flanking exon/introns:
chr9:49434946-49454310|chr9:49481200-49709977
Splice length:
1746
Other database IDs:
CIRCpedia: MMU_CIRCpedia_21582, circAtlas: mmu-Ncam1_0004
circBase: hsa_circ_0095005, circAtlas: hsa-NCAM1_0003, CIRCpedia: HSA_CIRCpedia_119717
Human Ortholog IDs:
Mature spliced Sequence:
TTTCCCTGCAGGTAGATATTGTTCCCAGCCAAGGAGAAATCAGCGTTGGAGAGTCCAAATTCTTCCTGTGTCAAGTGGCAGGAGATGCCAAAGATAAGGACATCTCCTGGTTCTCCCCCAATGGGGAGAAGCTGAGCCCAAACCAGCAGCGGATCTCAGTGGTGTGGAATGATGACGACTCCTCTACCCTCACCATCTACAACGCCAACATCGACGATGCCGGCATATACAAGTGTGTGGTCACGGCTGAGGACGGCACCCAGTCTGAGGCCACTGTCAACGTGAAGATCTTCCAGAAGCTCATGTTCAAGAATGCACCAACCCCACAGGAGTTTAAGGAAGGGGAGGATGCTGTGATTGTCTGTGATGTGGTCAGCTCCCTGCCTCCAACCATCATCTGGAAACACAAAGGCCGAGATGTCATTCTGAAAAAAGACGTCCGGTTCATAGTCCTGTCCAACAACTACCTGCAGATCAGGGGCATCAAGAAAACAGATGAGGGTACTTACCGCTGTGAGGGCAGGATCCTGGCCCGCGGGGAAATCAACTTCAAGGACATTCAGGTCATTGTGAATGTACCACCCACTGTCCAGGCCAGACAGAGCATCGTGAATGCCACTGCCAACCTGGGCCAGTCTGTCACCCTGGTGTGTGATGCCGATGGCTTCCCAGAGCCCACCATGAGCTGGACAAAGGATGGGGAACCCATAGAGAACGAGGAGGAAGATGACGAGAAGCACATCTTCAGTGATGACAGCTCCGAGCTGACCATCAGGAATGTGGATAAAAACGACGAGGCCGAATACGTCTGCATCGCAGAGAACAAGGCTGGCGAGCAGGATGCCTCCATCCACCTCAAGGTCTTTGCAAAGCCCAAAATCACCTATGTAGAGAATCAGACGGCCATGGAACTAGAGGAGCAAGTCACTCTGACCTGTGAAGCCTCCGGAGACCCCATCCCCTCCATCACCTGGAGAACATCCACCCGGAACATCAGCAGTGAAGAAAAGACTCTGGATGGGCACATGGTGGTTCGCAGCCATGCTCGTGTGTCCTCCTTGACCCTGAAGAGCATCCAGTACACAGATGCTGGAGAATACATCTGCACTGCCAGCAACACCATCGGCCAGGATTCCCAGTCCATGTACCTCGAAGTTCAATATGCTCCCAAGCTCCAGGGCCCTGTGGCTGTGTACACTTGGGAAGGGAACCAGGTGAACATCACCTGTGAGGTCTTCGCCTACCCAAGTGCCACAATCTCCTGGTTCCGAGATGGTCAGTTGCTGCCAAGCTCCAACTACAGCAATATCAAGATCTACAACACCCCATCTGCTAGCTATCTGGAGGTGACCCCTGATTCAGAAAATGACTTTGGAAACTACAACTGTACAGCAGTGAACCGTATTGGACAGGAGTCCTTGGAATTCATCCTTGTTCAAGCAGACACACCGTCTTCTCCATCCATTGACCGGGTGGAACCATACTCCAGCACAGCGCAGGTGCAGTTTGATGAGCCAGAGGCCACAGGGGGCGTGCCCATTCTCAAGTACAAGGCTGAGTGGAAGTCGCTGGGCGAAGAATCCTGGCATTTCAAGTGGTATGATGCCAAAGAAGCCAACATGGAAGGCATTGTCACCATCATGGGCCTGAAACCTGAGACGAGGTACTCGGTACGACTGGCGGCCCTCAACGGCAAGGGGCTGGGCGAGATCAGTGCAGCCACTGAGTTCAAGACACAGCCAGTCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAAACCTGAGACGAGGTACT
59.18
ACGCTGATTTCTCCTTGGCT
59.67
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAACCTGAGACGAGGTACT
58.13
ACGCTGATTTCTCCTTGGCT
59.67
145
PCR template sequence:
CTGAAACCTGAGACGAGGTACTCGGTACGACTGGCGGCCCTCAACGGCAAGGGGCTGGGCGAGATCAGTGCAGCCACTGAGTTCAAGACACAGCCAGTCCTTTCCCTGCAGGTAGATATTGTTCCCAGCCAAGGAGAAATCAGCGTTGGAGAGTCCAAATTCTTCCTGTGTCAAGTGGCAGGAGATGCCAAAGATAAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-34a-5p(1), mmu-miR-203-3p(1), mmu-miR-34b-5p(1), mmu-miR-680(1), mmu-miR-673-5p(1), mmu-miR-532-5p(1), mmu-miR-669d-5p(1), mmu-miR-540-3p(1), mmu-miR-193b-3p(1), mmu-miR-202-3p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACACAGCCAGTCCTTTCCCTGCAGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCAM1_1746_ORF_1
1.225
0.50637236
1
3189
ORF sequence:
ATGTTCAAGAATGCACCAACCCCACAGGAGTTTAAGGAAGGGGAGGATGCTGTGATTGTCTGTGATGTGGTCAGCTCCCTGCCTCCAACCATCATCTGGAAACACAAAGGCCGAGATGTCATTCTGAAAAAAGACGTCCGGTTCATAGTCCTGTCCAACAACTACCTGCAGATCAGGGGCATCAAGAAAACAGATGAGGGTACTTACCGCTGTGAGGGCAGGATCCTGGCCCGCGGGGAAATCAACTTCAAGGACATTCAGGTCATTGTGAATGTACCACCCACTGTCCAGGCCAGACAGAGCATCGTGAATGCCACTGCCAACCTGGGCCAGTCTGTCACCCTGGTGTGTGATGCCGATGGCTTCCCAGAGCCCACCATGAGCTGGACAAAGGATGGGGAACCCATAGAGAACGAGGAGGAAGATGACGAGAAGCACATCTTCAGTGATGACAGCTCCGAGCTGACCATCAGGAATGTGGATAAAAACGACGAGGCCGAATACGTCTGCATCGCAGAGAACAAGGCTGGCGAGCAGGATGCCTCCATCCACCTCAAGGTCTTTGCAAAGCCCAAAATCACCTATGTAGAGAATCAGACGGCCATGGAACTAGAGGAGCAAGTCACTCTGACCTGTGAAGCCTCCGGAGACCCCATCCCCTCCATCACCTGGAGAACATCCACCCGGAACATCAGCAGTGAAGAAAAGACTCTGGATGGGCACATGGTGGTTCGCAGCCATGCTCGTGTGTCCTCCTTGACCCTGAAGAGCATCCAGTACACAGATGCTGGAGAATACATCTGCACTGCCAGCAACACCATCGGCCAGGATTCCCAGTCCATGTACCTCGAAGTTCAATATGCTCCCAAGCTCCAGGGCCCTGTGGCTGTGTACACTTGGGAAGGGAACCAGGTGAACATCACCTGTGAGGTCTTCGCCTACCCAAGTGCCACAATCTCCTGGTTCCGAGATGGTCAGTTGCTGCCAAGCTCCAACTACAGCAATATCAAGATCTACAACACCCCATCTGCTAGCTATCTGGAGGTGACCCCTGATTCAGAAAATGACTTTGGAAACTACAACTGTACAGCAGTGAACCGTATTGGACAGGAGTCCTTGGAATTCATCCTTGTTCAAGCAGACACACCGTCTTCTCCATCCATTGACCGGGTGGAACCATACTCCAGCACAGCGCAGGTGCAGTTTGATGAGCCAGAGGCCACAGGGGGCGTGCCCATTCTCAAGTACAAGGCTGAGTGGAAGTCGCTGGGCGAAGAATCCTGGCATTTCAAGTGGTATGATGCCAAAGAAGCCAACATGGAAGGCATTGTCACCATCATGGGCCTGAAACCTGAGACGAGGTACTCGGTACGACTGGCGGCCCTCAACGGCAAGGGGCTGGGCGAGATCAGTGCAGCCACTGAGTTCAAGACACAGCCAGTCCTTTCCCTGCAGGTAGATATTGTTCCCAGCCAAGGAGAAATCAGCGTTGGAGAGTCCAAATTCTTCCTGTGTCAAGTGGCAGGAGATGCCAAAGATAAGGACATCTCCTGGTTCTCCCCCAATGGGGAGAAGCTGAGCCCAAACCAGCAGCGGATCTCAGTGGTGTGGAATGATGACGACTCCTCTACCCTCACCATCTACAACGCCAACATCGACGATGCCGGCATATACAAGTGTGTGGTCACGGCTGAGGACGGCACCCAGTCTGAGGCCACTGTCAACGTGAAGATCTTCCAGAAGCTCATGTTCAAGAATGCACCAACCCCACAGGAGTTTAAGGAAGGGGAGGATGCTGTGATTGTCTGTGATGTGGTCAGCTCCCTGCCTCCAACCATCATCTGGAAACACAAAGGCCGAGATGTCATTCTGAAAAAAGACGTCCGGTTCATAGTCCTGTCCAACAACTACCTGCAGATCAGGGGCATCAAGAAAACAGATGAGGGTACTTACCGCTGTGAGGGCAGGATCCTGGCCCGCGGGGAAATCAACTTCAAGGACATTCAGGTCATTGTGAATGTACCACCCACTGTCCAGGCCAGACAGAGCATCGTGAATGCCACTGCCAACCTGGGCCAGTCTGTCACCCTGGTGTGTGATGCCGATGGCTTCCCAGAGCCCACCATGAGCTGGACAAAGGATGGGGAACCCATAGAGAACGAGGAGGAAGATGACGAGAAGCACATCTTCAGTGATGACAGCTCCGAGCTGACCATCAGGAATGTGGATAAAAACGACGAGGCCGAATACGTCTGCATCGCAGAGAACAAGGCTGGCGAGCAGGATGCCTCCATCCACCTCAAGGTCTTTGCAAAGCCCAAAATCACCTATGTAGAGAATCAGACGGCCATGGAACTAGAGGAGCAAGTCACTCTGACCTGTGAAGCCTCCGGAGACCCCATCCCCTCCATCACCTGGAGAACATCCACCCGGAACATCAGCAGTGAAGAAAAGACTCTGGATGGGCACATGGTGGTTCGCAGCCATGCTCGTGTGTCCTCCTTGACCCTGAAGAGCATCCAGTACACAGATGCTGGAGAATACATCTGCACTGCCAGCAACACCATCGGCCAGGATTCCCAGTCCATGTACCTCGAAGTTCAATATGCTCCCAAGCTCCAGGGCCCTGTGGCTGTGTACACTTGGGAAGGGAACCAGGTGAACATCACCTGTGAGGTCTTCGCCTACCCAAGTGCCACAATCTCCTGGTTCCGAGATGGTCAGTTGCTGCCAAGCTCCAACTACAGCAATATCAAGATCTACAACACCCCATCTGCTAGCTATCTGGAGGTGACCCCTGATTCAGAAAATGACTTTGGAAACTACAACTGTACAGCAGTGAACCGTATTGGACAGGAGTCCTTGGAATTCATCCTTGTTCAAGCAGACACACCGTCTTCTCCATCCATTGACCGGGTGGAACCATACTCCAGCACAGCGCAGGTGCAGTTTGATGAGCCAGAGGCCACAGGGGGCGTGCCCATTCTCAAGTACAAGGCTGAGTGGAAGTCGCTGGGCGAAGAATCCTGGCATTTCAAGTGGTATGATGCCAAAGAAGCCAACATGGAAGGCATTGTCACCATCATGGGCCTGAAACCTGAGACGAGGTACTCGGTACGACTGGCGGCCCTCAACGGCAAGGGGCTGGGCGAGATCAGTGCAGCCACTGAGTTCAAGACACAGCCAGTC
Peptide sequence:
MFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRILARGEINFKDIQVIVNVPPTVQARQSIVNATANLGQSVTLVCDADGFPEPTMSWTKDGEPIENEEEDDEKHIFSDDSSELTIRNVDKNDEAEYVCIAENKAGEQDASIHLKVFAKPKITYVENQTAMELEEQVTLTCEASGDPIPSITWRTSTRNISSEEKTLDGHMVVRSHARVSSLTLKSIQYTDAGEYICTASNTIGQDSQSMYLEVQYAPKLQGPVAVYTWEGNQVNITCEVFAYPSATISWFRDGQLLPSSNYSNIKIYNTPSASYLEVTPDSENDFGNYNCTAVNRIGQESLEFILVQADTPSSPSIDRVEPYSSTAQVQFDEPEATGGVPILKYKAEWKSLGEESWHFKWYDAKEANMEGIVTIMGLKPETRYSVRLAALNGKGLGEISAATEFKTQPVLSLQVDIVPSQGEISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYNANIDDAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRILARGEINFKDIQVIVNVPPTVQARQSIVNATANLGQSVTLVCDADGFPEPTMSWTKDGEPIENEEEDDEKHIFSDDSSELTIRNVDKNDEAEYVCIAENKAGEQDASIHLKVFAKPKITYVENQTAMELEEQVTLTCEASGDPIPSITWRTSTRNISSEEKTLDGHMVVRSHARVSSLTLKSIQYTDAGEYICTASNTIGQDSQSMYLEVQYAPKLQGPVAVYTWEGNQVNITCEVFAYPSATISWFRDGQLLPSSNYSNIKIYNTPSASYLEVTPDSENDFGNYNCTAVNRIGQESLEFILVQADTPSSPSIDRVEPYSSTAQVQFDEPEATGGVPILKYKAEWKSLGEESWHFKWYDAKEANMEGIVTIMGLKPETRYSVRLAALNGKGLGEISAATEFKTQPV
IRESfinder result
IRESfinder score
0.335123848
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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