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mmu_circPip5k1b_1146
Basic information of circular RNA
PanCircBase ID:
mmu_circPip5k1b_1146
mm39_Chr. Position ID:
chr19|24323600|24367825|-
Gene name:
Pip5k1b
Transcript:
ENSMUST00000112673.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
12,11,10,9,8,7,6,5
Exon/intron offsets:
0,8881,11793,11974,13703,32565,35451,44107
Genomic length:
44225
Exon/intron sizes in nt:
14,58,54,98,42,12,30,00,00,000
Flanking exon/introns:
chr19:24281510-24323600|chr19:24367825-24374379
Splice length:
1146
Other database IDs:
circAtlas: mmu-Pip5k1b_0017
circBase: hsa_circ_0087141, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_149127
Human Ortholog IDs:
Mature spliced Sequence:
TGAAGGGAGCAACCTGACCCCAGCACATCACTACCCAGACTTCAGGTTTAAGACCTACGCACCGCTGGCCTTCCGGTACTTCCGAGAACTCTTTGGTATCAAGCCCGATGATTACTTGTACTCCATCTGCAGTGAACCTCTGATAGAACTGTCCAATCCTGGAGCCAGTGGGTCCTTGTTTTTCTTGACCAGCGATGATGAATTTATCATCAAAACCGTTCAGCATAAGGAAGCCGAGTTCCTGCAGAAGCTGCTGCCGGGCTATTACATGAATTTAAACCAGAATCCAAGGACTCTTCTGCCAAAATTCTATGGGCTGTATTGCATGCAGTCAGGAGGCATCAACATCCGCATTGTGGTGATGAACAATGTCCTGCCGCGTGCCATGAGGATGCATTTGACCTATGACCTGAAAGGCTCCACATACAAGCGAAGAGCATCCCGAAAAGAGAGGGAGAAACCCAACCCCACGTTTAAGGACCTGGACTTCCTGCAGGACATGCACGAGGGGCTGTATTTCGATACAGAAACATACAATGCCCTTATGAAGACACTACAGAGAGACTGCCGGGTTCTGGAAAGCTTCAAGATCATGGACTACAGCCTTTTGCTGGGTATCCACATCTTGGACCATTCCCTCAAAGACAAAGAAGAGGAGCCCCTCCAAAACGTGCCTGATGCAAAGCGGCCGGGGATGCAGAAAGTCCTCTATTCCACAGCCATGGAATCCATCCAGGGTCCAGGCAAGTCTGCAGATGGGATCATTGCAGAGAATCCAGACACAATGGGAGGCATTCCAGCTAAAAGCCATAAGGGAGAGAAGCTGCTTCTATTCATGGGCATTATTGACATCCTCCAATCATATAGGTTAATGAAGAAGTTAGAACATTCCTGGAAAGCCCTTGTTTATGATGGGGACACCGTTTCAGTTCATAGACCAAGTTTTTATGCAGATAGATTTTTAAAGTTTATGAATTCCAGAGTTTTCAAGAAAATTCAAGCCCTGGGATCCCGACACAGGCCCGACCTGGTACCCAGCACTCCATCATTATTTGAAGCTGCTTCCTTAGCGACCACAATATCATCTTCTTCCTTATATGTCGGCGAACACTATCCACATGACAGGACTACCCTTTACTCAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCCTTAGCGACCACAAT
58.26
CAGCGGTGCGTAGGTCTTAA
60.11
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTCCTTAGCGACCACAAT
58.26
AGCGGTGCGTAGGTCTTAAA
59.4
152
PCR template sequence:
CATTATTTGAAGCTGCTTCCTTAGCGACCACAATATCATCTTCTTCCTTATATGTCGGCGAACACTATCCACATGACAGGACTACCCTTTACTCAAACAGTGAAGGGAGCAACCTGACCCCAGCACATCACTACCCAGACTTCAGGTTTAAGACCTACGCACCGCTGGCCTTCCGGTACTTCCGAGAACTCTTTGGTATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-324-5p(1), mmu-miR-149-5p(1), mmu-miR-183-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTACTCAAACAGTGAAGGGAGCAAC
siRNA sets
TTGCTCCCTTCACTGTTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIP5K1B_1146_ORF_1
0.9289
0.232557991
0.999993688
2022
ORF sequence:
ATGAATTTAAACCAGAATCCAAGGACTCTTCTGCCAAAATTCTATGGGCTGTATTGCATGCAGTCAGGAGGCATCAACATCCGCATTGTGGTGATGAACAATGTCCTGCCGCGTGCCATGAGGATGCATTTGACCTATGACCTGAAAGGCTCCACATACAAGCGAAGAGCATCCCGAAAAGAGAGGGAGAAACCCAACCCCACGTTTAAGGACCTGGACTTCCTGCAGGACATGCACGAGGGGCTGTATTTCGATACAGAAACATACAATGCCCTTATGAAGACACTACAGAGAGACTGCCGGGTTCTGGAAAGCTTCAAGATCATGGACTACAGCCTTTTGCTGGGTATCCACATCTTGGACCATTCCCTCAAAGACAAAGAAGAGGAGCCCCTCCAAAACGTGCCTGATGCAAAGCGGCCGGGGATGCAGAAAGTCCTCTATTCCACAGCCATGGAATCCATCCAGGGTCCAGGCAAGTCTGCAGATGGGATCATTGCAGAGAATCCAGACACAATGGGAGGCATTCCAGCTAAAAGCCATAAGGGAGAGAAGCTGCTTCTATTCATGGGCATTATTGACATCCTCCAATCATATAGGTTAATGAAGAAGTTAGAACATTCCTGGAAAGCCCTTGTTTATGATGGGGACACCGTTTCAGTTCATAGACCAAGTTTTTATGCAGATAGATTTTTAAAGTTTATGAATTCCAGAGTTTTCAAGAAAATTCAAGCCCTGGGATCCCGACACAGGCCCGACCTGGTACCCAGCACTCCATCATTATTTGAAGCTGCTTCCTTAGCGACCACAATATCATCTTCTTCCTTATATGTCGGCGAACACTATCCACATGACAGGACTACCCTTTACTCAAACAGTGAAGGGAGCAACCTGACCCCAGCACATCACTACCCAGACTTCAGGTTTAAGACCTACGCACCGCTGGCCTTCCGGTACTTCCGAGAACTCTTTGGTATCAAGCCCGATGATTACTTGTACTCCATCTGCAGTGAACCTCTGATAGAACTGTCCAATCCTGGAGCCAGTGGGTCCTTGTTTTTCTTGACCAGCGATGATGAATTTATCATCAAAACCGTTCAGCATAAGGAAGCCGAGTTCCTGCAGAAGCTGCTGCCGGGCTATTACATGAATTTAAACCAGAATCCAAGGACTCTTCTGCCAAAATTCTATGGGCTGTATTGCATGCAGTCAGGAGGCATCAACATCCGCATTGTGGTGATGAACAATGTCCTGCCGCGTGCCATGAGGATGCATTTGACCTATGACCTGAAAGGCTCCACATACAAGCGAAGAGCATCCCGAAAAGAGAGGGAGAAACCCAACCCCACGTTTAAGGACCTGGACTTCCTGCAGGACATGCACGAGGGGCTGTATTTCGATACAGAAACATACAATGCCCTTATGAAGACACTACAGAGAGACTGCCGGGTTCTGGAAAGCTTCAAGATCATGGACTACAGCCTTTTGCTGGGTATCCACATCTTGGACCATTCCCTCAAAGACAAAGAAGAGGAGCCCCTCCAAAACGTGCCTGATGCAAAGCGGCCGGGGATGCAGAAAGTCCTCTATTCCACAGCCATGGAATCCATCCAGGGTCCAGGCAAGTCTGCAGATGGGATCATTGCAGAGAATCCAGACACAATGGGAGGCATTCCAGCTAAAAGCCATAAGGGAGAGAAGCTGCTTCTATTCATGGGCATTATTGACATCCTCCAATCATATAGGTTAATGAAGAAGTTAGAACATTCCTGGAAAGCCCTTGTTTATGATGGGGACACCGTTTCAGTTCATAGACCAAGTTTTTATGCAGATAGATTTTTAAAGTTTATGAATTCCAGAGTTTTCAAGAAAATTCAAGCCCTGGGATCCCGACACAGGCCCGACCTGGTACCCAGCACTCCATCATTATTTGAAGCTGCTTCCTTAGCGACCACAATATCATCTTCTTCCTTATATGTCGGCGAACACTATCCACATGACAGGACTACCCTTTACTCAAAC
Peptide sequence:
MNLNQNPRTLLPKFYGLYCMQSGGINIRIVVMNNVLPRAMRMHLTYDLKGSTYKRRASRKEREKPNPTFKDLDFLQDMHEGLYFDTETYNALMKTLQRDCRVLESFKIMDYSLLLGIHILDHSLKDKEEEPLQNVPDAKRPGMQKVLYSTAMESIQGPGKSADGIIAENPDTMGGIPAKSHKGEKLLLFMGIIDILQSYRLMKKLEHSWKALVYDGDTVSVHRPSFYADRFLKFMNSRVFKKIQALGSRHRPDLVPSTPSLFEAASLATTISSSSLYVGEHYPHDRTTLYSNSEGSNLTPAHHYPDFRFKTYAPLAFRYFRELFGIKPDDYLYSICSEPLIELSNPGASGSLFFLTSDDEFIIKTVQHKEAEFLQKLLPGYYMNLNQNPRTLLPKFYGLYCMQSGGINIRIVVMNNVLPRAMRMHLTYDLKGSTYKRRASRKEREKPNPTFKDLDFLQDMHEGLYFDTETYNALMKTLQRDCRVLESFKIMDYSLLLGIHILDHSLKDKEEEPLQNVPDAKRPGMQKVLYSTAMESIQGPGKSADGIIAENPDTMGGIPAKSHKGEKLLLFMGIIDILQSYRLMKKLEHSWKALVYDGDTVSVHRPSFYADRFLKFMNSRVFKKIQALGSRHRPDLVPSTPSLFEAASLATTISSSSLYVGEHYPHDRTTLYSN
IRESfinder result
IRESfinder score
0.622905422
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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