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mmu_circNom1_1186
Basic information of circular RNA
PanCircBase ID:
mmu_circNom1_1186
mm39_Chr. Position ID:
chr5|29642594|29651943|+
Gene name:
Nom1
Transcript:
ENSMUST00000001611.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,2229,3734,4897,5753,8642,9217
Genomic length:
9349
Exon/intron sizes in nt:
19,63,24,11,11,68,12,20,00,000
Flanking exon/introns:
chr5:29641055-29642594|chr5:29651943-29654579
Splice length:
1186
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15455, circAtlas: mmu-Nom1_0002
Human Ortholog IDs:
Mature spliced Sequence:
GTTGAGTGAGCCAAACATGGCTTCTATAAGTGGGCAGCTAGAGGAGCTGTACATGGCCCACAGCAGGAAGGACATGAACGATACCCTGACCACTGCCCTCATGGATGCCTGTGTCACTGCCTCAGCCATGCCCAGCAGACTGATGATGGAGCATGTCTTCTTAGTCAGCATCCTCCACCACACGGTCGGAATAGAGGTTGGTGCTTGCTTCCTTGAAGCTGTGGTAAAGAAGTTTGATGCTATCTATAGAGATGGAGGTGAGGGGAAAGAACTGGACAACCTCTTTACCATGATTGCCCATTTGTACAACTTCCACGTGGTACAGTCTATCCTCATCTTTGACATTTTAAAGAAGCTTGTTGGAACTTTTACGGAAAAAGACATTGAGCTGATCCTGTTGATGCTGAAAAATGTGGGCTTTGCATTGAGAAAAGATGACGCCTTGTCACTTAAGGAACTGATCACAGAAGCCCAGACCCAGGCCAGTGGTGCAGGCAACAAGTTTCAGGACCAGAACAGGGTACGGTTTATGTTGGAAACAATGCTGGCTCTGAAGAACAATGACCTGCGTAAAATCCCTGGTTATAATCCTGAGCCTGTGGAAAAACTGAAGAAGTTACAAAGAACTCTGGTTCGAAATGCTGGCTCAGGTTCTGAGACTCGGCTTCGCATCTCCTGGGATGGCATCTTGAATGCAGAGCAGACTGGTCGCTGGTGGATTGTGGGGTCTGCATGGAGTGGGACCCCAATGATTGACAACAGTCATCACATACAACTTCAGAAGCCACTTGCAGGCATGGCTAGCTCTAAGATGCTGGAGCTTGCGAGGAAGCAGAGAATGAACACTGATGTCAGGAGGATCATATTCTGCACTTTAATGACAAGTGAGGACTTCTTGGATGCCTTTGAAAAGCTGCTGAAGCTTGGACTGAAGGACCAGCAGGAGAGAGAGATAGTTCATATCCTCATGGATTGCTGTCTGCAAGAGAAAACCTACAACCCTTTCTATGCTTTCCTGGCCAGCAAATTCTGTGACTATGAAAGGAGATTCCAGATGACTTTCCAGTTCAGCATATGGGACAAATTTCGGGACTTAGAAAATTTGCCAGACACTAAGTTCTCAAATCTGGTTCATCTGCTGGCACACTTGTTGAGGACAAAATCACTTCCACTTTCTGTTCTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGCTGGCACACTTGTTGA
60.11
GCAGTGGTCAGGGTATCGTT
59.75
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCATCTGCTGGCACACTTGT
59.89
GCAGTGGTCAGGGTATCGTT
59.75
151
PCR template sequence:
TCGGGACTTAGAAAATTTGCCAGACACTAAGTTCTCAAATCTGGTTCATCTGCTGGCACACTTGTTGAGGACAAAATCACTTCCACTTTCTGTTCTAAAGGTTGAGTGAGCCAAACATGGCTTCTATAAGTGGGCAGCTAGAGGAGCTGTACATGGCCCACAGCAGGAAGGACATGAACGATACCCTGACCACTGCCCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-382-5p(2), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-106b-5p(1), mmu-miR-29a-3p(1), mmu-miR-709(1), mmu-miR-10a-5p(1), mmu-miR-22-3p(1), mmu-miR-541-5p(1), mmu-miR-297a-5p(1), mmu-miR-484(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTGTTCTAAAGGTTGAGTGAGCCA
siRNA sets
ACTCAACCTTTAGAACAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNOM1_1186_ORF_1
1.1474
0.242106664
0.998226703
1179
ORF sequence:
ATGGCTTCTATAAGTGGGCAGCTAGAGGAGCTGTACATGGCCCACAGCAGGAAGGACATGAACGATACCCTGACCACTGCCCTCATGGATGCCTGTGTCACTGCCTCAGCCATGCCCAGCAGACTGATGATGGAGCATGTCTTCTTAGTCAGCATCCTCCACCACACGGTCGGAATAGAGGTTGGTGCTTGCTTCCTTGAAGCTGTGGTAAAGAAGTTTGATGCTATCTATAGAGATGGAGGTGAGGGGAAAGAACTGGACAACCTCTTTACCATGATTGCCCATTTGTACAACTTCCACGTGGTACAGTCTATCCTCATCTTTGACATTTTAAAGAAGCTTGTTGGAACTTTTACGGAAAAAGACATTGAGCTGATCCTGTTGATGCTGAAAAATGTGGGCTTTGCATTGAGAAAAGATGACGCCTTGTCACTTAAGGAACTGATCACAGAAGCCCAGACCCAGGCCAGTGGTGCAGGCAACAAGTTTCAGGACCAGAACAGGGTACGGTTTATGTTGGAAACAATGCTGGCTCTGAAGAACAATGACCTGCGTAAAATCCCTGGTTATAATCCTGAGCCTGTGGAAAAACTGAAGAAGTTACAAAGAACTCTGGTTCGAAATGCTGGCTCAGGTTCTGAGACTCGGCTTCGCATCTCCTGGGATGGCATCTTGAATGCAGAGCAGACTGGTCGCTGGTGGATTGTGGGGTCTGCATGGAGTGGGACCCCAATGATTGACAACAGTCATCACATACAACTTCAGAAGCCACTTGCAGGCATGGCTAGCTCTAAGATGCTGGAGCTTGCGAGGAAGCAGAGAATGAACACTGATGTCAGGAGGATCATATTCTGCACTTTAATGACAAGTGAGGACTTCTTGGATGCCTTTGAAAAGCTGCTGAAGCTTGGACTGAAGGACCAGCAGGAGAGAGAGATAGTTCATATCCTCATGGATTGCTGTCTGCAAGAGAAAACCTACAACCCTTTCTATGCTTTCCTGGCCAGCAAATTCTGTGACTATGAAAGGAGATTCCAGATGACTTTCCAGTTCAGCATATGGGACAAATTTCGGGACTTAGAAAATTTGCCAGACACTAAGTTCTCAAATCTGGTTCATCTGCTGGCACACTTGTTGAGGACAAAATCACTTCCACTTTCTGTTCTAAAGGTTGAGTGA
Peptide sequence:
MASISGQLEELYMAHSRKDMNDTLTTALMDACVTASAMPSRLMMEHVFLVSILHHTVGIEVGACFLEAVVKKFDAIYRDGGEGKELDNLFTMIAHLYNFHVVQSILIFDILKKLVGTFTEKDIELILLMLKNVGFALRKDDALSLKELITEAQTQASGAGNKFQDQNRVRFMLETMLALKNNDLRKIPGYNPEPVEKLKKLQRTLVRNAGSGSETRLRISWDGILNAEQTGRWWIVGSAWSGTPMIDNSHHIQLQKPLAGMASSKMLELARKQRMNTDVRRIIFCTLMTSEDFLDAFEKLLKLGLKDQQEREIVHILMDCCLQEKTYNPFYAFLASKFCDYERRFQMTFQFSIWDKFRDLENLPDTKFSNLVHLLAHLLRTKSLPLSVLKVE
IRESfinder result
IRESfinder score
0.467110277
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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