top of page
mmu_circNek10_2608
Basic information of circular RNA
PanCircBase ID:
mmu_circNek10_2608
mm39_Chr. Position ID:
chr14|7489147|7633620|-
Gene name:
Nek10
Transcript:
ENSMUST00000224491.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
26
Exon/intron indexes:
31,30,29,28,27,26,25,24,23,22,21,20,19,18,17,16,15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,11103,23010,24758,24937,42828,49295,49911,95487,114880,115101,117114,118927,119561,119774,121256,122755,124878,126632,129631,133924,135038,136701,137751,140011,144388
Genomic length:
144473
Exon/intron sizes in nt:
101,38,55,87,184,214,71,130,76,103,122,46,138,129,103,65,78,62,140,225,87,80,68,79,42,85
Flanking exon/introns:
chr14:7483096-7489147|chr14:7633620-7641221
Splice length:
2608
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGAGTGGGTTAATCGTGCTCCATCCATTCATTTTCTGAGAGTGTTAATTTGTCTGAGGCTGCTGATGCGGGATCCATGTTATCAGGAAATACTCCATAAATTGGGTGGTATTGAAGACCTTGCTCAGTACATGGAGATCGTGGCCAACGAGTACCTGGGCTACGCTGAGGAGCAGCACTGTGTGGACAAGCTGGTCAATATGACGTATATTTTTCAAAAACTTGCTGCTGTGAAAGACCAAAGAGAATGGGTTACTGCAAGTGGAGCCCACAAGACATTAGTGAGTTTGCTTGGTGCCCGAGACACCACTGTCCTCTTGGGTGCTCTGCTGGCACTGGCCAGCTTAGCAGAGAGTTCAGAGTGTAGGGAGAAGATCAGTGAACTCAACGTAGTAGAAAATCTGTTGATGATTCTGCACGAATATGATTTACTCTCCAAAAGACTCACTGCCGAGCTCCTGCGCCTGCTTTGTGCTGAGCCCCAGATCAAGGAGCAGGTGAAACTCTATGAAGGGATCCCCATCCTGCTCAGTCTGCTTCATTCTGATCACTTGAAGCTGCTGTGGAGTGTGATCTGGATTCTGGTCCAGGTGTGTGAGGACCCGGAGACTAGTGTGGAAATCCGAATCTGGGGTGGCATCAAGCAGCTCCTTCATATTTTACAAGGAGACAGAAATTTTGTTTCTGACCGTTCTTCCATCGGAAGCCTGTCCAGTGCAAATGCCGCAGGACGCATCCAGCAGCTTCATTTGTCAGAAGATTTAAGCCCTGGGGAAATCGAGGAAAATACTGTCTCTCTCCAAGCAGCCTGCTGTGCTGCCCTCACCGAGCTGGCCCTCAATGATACCAATGCCCACCAAGTGGTACAGGAAAATGGTGTATATACAATAGCAAAATTAATTTTACCAAATAAACAATCGAATGCAGCACAAACTAATCTACTACAGTGTTATGCTTTCAGAACCCTGAGGTTTCTCTTCAGTATGGAAAGGAACAGGCCACTCTTTAAAAGACTTTTTCCCACCGACCTGTTTGAGACCTTCATTGACATAGGACATTACGTTCGTGATATTGGTGCTTATAAGGACTTGGTATCACAGTTGAATTTACTATTGGAAGATGAGCTGAAGCAAATTGCTGAGAATATTGAAAGCATCAATCAGAAGAAAGCGCCCTTGAAGTACATAGGTGACTATGCTGTGTTGGACCACCTTGGAAGTGGAGCTTTTGGCTGTGTTTATAAGGTTAGAAAGCGTAGTGGTCAAAATCTTTTAGCAATGAAGGAGGTCAATTTGCATAACCCAGCATTTGGAAAGGATAAGAAAGACCGAGACAGCAGTGTCAAGAACATTGTTTCTGAATTAACAATAATTAAGGAGCAGCTTTATCATCCCAATGTTGTACGTTATTATAAAACATTTTTGGAAAATGACAGGTTGTATATCGTTATGGAGCTGATAGAAGGAGCCCCACTTGGAGAGCACTTTAATTCTTTGAAGGAAAAACATCACCATTTCAGTGAAGAGCGACTGTGGAAAATATTTATACAGCTGTGCTTAGCTCTTCGGTATCTGCACAAGGAGAAGAGGATTGTTCACAGAGATCTCACGCCAAACAACATTATGCTGGGAGATAAGGACAAAGTGACAGTTACTGACTTTGGCCTGGCAAAGCAAAAACAGGAAAGCAGTAAGCTTACATCTATGGTGGGAACGATCCTCTATTCTTGCCCAGAGGTCCTGAAGAGTGAGCCATATGGAGAGAAGGCCGATGTCTGGGCTGCTGGCTGCATCCTTTATCAGATGGCGACTCTAAGTCCTCCCTTCTGTAGCACCAACATGCTCTCCTTGGCTACTAAAATAGTGGAGGCTGTATATGAGCCAGTGCCAGAAGGTATCTACTCTGAAAAAGTGACAGATACCATTAGAAGGTGCCTCACTCCTGATGCAGAAGCCCGTCCAGATATTGTAGAAGTTAGTTCCATGATATCAGATGTCATGATGAAGTATTTAGACAGATTATCCACATCCCAGCTAGCCTTGGAGAGGAAACTGGAAAGGGAGCGGAGGCGCACACAGAGATACTTTATGGAAGCCAACAGGAATGCTGTCACATGTCACCATGAGCTGGCTCTTCTGTCCCAGGAGACCTTTGAGAAGGCAAGCCTGAGCAGCAGTAGCAGCGGGGCAGCCAGCCTGAAAAGTGAGCTTTCAGAGAGCGCAGAGCTGCCTGGAGAGGGCTGCCACATCCCCTGCGGGAAGGAGGAGGACAGGGTCTGTGAGGAGGTGCTGTCAGAAGACAACTTCCAGCTGGAGAGTGTGGAGAAAGACCTGTATTCTGAGCTAGACGATGAGCTGGACGTCTCGGACAACTGTAGCAGCTCCAGTTCAAGCCCCCTAAAGGAGTCTACATTCAGCATTTTAAAGCGAAGTTTCAGTGCTTCGGGAAGAGAAAGGCACTCACAGGCAAGGGACTTCATTGCTGGACTAGGATCAAGACCAAGACCAGCATCTGCAGGCATCGCTGTATCCCAGCGGAAAGTGCGGCAGATCTGCGACCCCATTCAGCAGATCCTGATCCAGCTACATAAAGTTATCTACATCACGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGCAGGCATCGCTGTATC
60.25
GCATCAGCAGCCTCAGACAA
60.68
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGATCTGCGACCCCATTCA
59.82
AACATGGATCCCGCATCAGC
60.82
143
PCR template sequence:
ATCTGCAGGCATCGCTGTATCCCAGCGGAAAGTGCGGCAGATCTGCGACCCCATTCAGCAGATCCTGATCCAGCTACATAAAGTTATCTACATCACGCAGAGAGTGGGTTAATCGTGCTCCATCCATTCATTTTCTGAGAGTGTTAATTTGTCTGAGGCTGCTGATGCGGGATCCATGTTATCAGGAAATACTCCATAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-20b-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-205-5p(1), mmu-miR-211-5p(1), mmu-miR-322-5p(1), mmu-miR-106b-5p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-139-5p(1), mmu-miR-214-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-676-3p(1), mmu-miR-96-5p(1), mmu-miR-383-5p(1), mmu-miR-27a-5p(1), mmu-miR-680(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-3087-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTACATCACGCAGAGAGTGGGTTAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNEK10_2608_ORF_1
1.053
0.202593443
0.999999871
2556
ORF sequence:
ATGCGGGATCCATGTTATCAGGAAATACTCCATAAATTGGGTGGTATTGAAGACCTTGCTCAGTACATGGAGATCGTGGCCAACGAGTACCTGGGCTACGCTGAGGAGCAGCACTGTGTGGACAAGCTGGTCAATATGACGTATATTTTTCAAAAACTTGCTGCTGTGAAAGACCAAAGAGAATGGGTTACTGCAAGTGGAGCCCACAAGACATTAGTGAGTTTGCTTGGTGCCCGAGACACCACTGTCCTCTTGGGTGCTCTGCTGGCACTGGCCAGCTTAGCAGAGAGTTCAGAGTGTAGGGAGAAGATCAGTGAACTCAACGTAGTAGAAAATCTGTTGATGATTCTGCACGAATATGATTTACTCTCCAAAAGACTCACTGCCGAGCTCCTGCGCCTGCTTTGTGCTGAGCCCCAGATCAAGGAGCAGGTGAAACTCTATGAAGGGATCCCCATCCTGCTCAGTCTGCTTCATTCTGATCACTTGAAGCTGCTGTGGAGTGTGATCTGGATTCTGGTCCAGGTGTGTGAGGACCCGGAGACTAGTGTGGAAATCCGAATCTGGGGTGGCATCAAGCAGCTCCTTCATATTTTACAAGGAGACAGAAATTTTGTTTCTGACCGTTCTTCCATCGGAAGCCTGTCCAGTGCAAATGCCGCAGGACGCATCCAGCAGCTTCATTTGTCAGAAGATTTAAGCCCTGGGGAAATCGAGGAAAATACTGTCTCTCTCCAAGCAGCCTGCTGTGCTGCCCTCACCGAGCTGGCCCTCAATGATACCAATGCCCACCAAGTGGTACAGGAAAATGGTGTATATACAATAGCAAAATTAATTTTACCAAATAAACAATCGAATGCAGCACAAACTAATCTACTACAGTGTTATGCTTTCAGAACCCTGAGGTTTCTCTTCAGTATGGAAAGGAACAGGCCACTCTTTAAAAGACTTTTTCCCACCGACCTGTTTGAGACCTTCATTGACATAGGACATTACGTTCGTGATATTGGTGCTTATAAGGACTTGGTATCACAGTTGAATTTACTATTGGAAGATGAGCTGAAGCAAATTGCTGAGAATATTGAAAGCATCAATCAGAAGAAAGCGCCCTTGAAGTACATAGGTGACTATGCTGTGTTGGACCACCTTGGAAGTGGAGCTTTTGGCTGTGTTTATAAGGTTAGAAAGCGTAGTGGTCAAAATCTTTTAGCAATGAAGGAGGTCAATTTGCATAACCCAGCATTTGGAAAGGATAAGAAAGACCGAGACAGCAGTGTCAAGAACATTGTTTCTGAATTAACAATAATTAAGGAGCAGCTTTATCATCCCAATGTTGTACGTTATTATAAAACATTTTTGGAAAATGACAGGTTGTATATCGTTATGGAGCTGATAGAAGGAGCCCCACTTGGAGAGCACTTTAATTCTTTGAAGGAAAAACATCACCATTTCAGTGAAGAGCGACTGTGGAAAATATTTATACAGCTGTGCTTAGCTCTTCGGTATCTGCACAAGGAGAAGAGGATTGTTCACAGAGATCTCACGCCAAACAACATTATGCTGGGAGATAAGGACAAAGTGACAGTTACTGACTTTGGCCTGGCAAAGCAAAAACAGGAAAGCAGTAAGCTTACATCTATGGTGGGAACGATCCTCTATTCTTGCCCAGAGGTCCTGAAGAGTGAGCCATATGGAGAGAAGGCCGATGTCTGGGCTGCTGGCTGCATCCTTTATCAGATGGCGACTCTAAGTCCTCCCTTCTGTAGCACCAACATGCTCTCCTTGGCTACTAAAATAGTGGAGGCTGTATATGAGCCAGTGCCAGAAGGTATCTACTCTGAAAAAGTGACAGATACCATTAGAAGGTGCCTCACTCCTGATGCAGAAGCCCGTCCAGATATTGTAGAAGTTAGTTCCATGATATCAGATGTCATGATGAAGTATTTAGACAGATTATCCACATCCCAGCTAGCCTTGGAGAGGAAACTGGAAAGGGAGCGGAGGCGCACACAGAGATACTTTATGGAAGCCAACAGGAATGCTGTCACATGTCACCATGAGCTGGCTCTTCTGTCCCAGGAGACCTTTGAGAAGGCAAGCCTGAGCAGCAGTAGCAGCGGGGCAGCCAGCCTGAAAAGTGAGCTTTCAGAGAGCGCAGAGCTGCCTGGAGAGGGCTGCCACATCCCCTGCGGGAAGGAGGAGGACAGGGTCTGTGAGGAGGTGCTGTCAGAAGACAACTTCCAGCTGGAGAGTGTGGAGAAAGACCTGTATTCTGAGCTAGACGATGAGCTGGACGTCTCGGACAACTGTAGCAGCTCCAGTTCAAGCCCCCTAAAGGAGTCTACATTCAGCATTTTAAAGCGAAGTTTCAGTGCTTCGGGAAGAGAAAGGCACTCACAGGCAAGGGACTTCATTGCTGGACTAGGATCAAGACCAAGACCAGCATCTGCAGGCATCGCTGTATCCCAGCGGAAAGTGCGGCAGATCTGCGACCCCATTCAGCAGATCCTGATCCAGCTACATAAAGTTATCTACATCACGCAGAGAGTGGGTTAA
Peptide sequence:
MRDPCYQEILHKLGGIEDLAQYMEIVANEYLGYAEEQHCVDKLVNMTYIFQKLAAVKDQREWVTASGAHKTLVSLLGARDTTVLLGALLALASLAESSECREKISELNVVENLLMILHEYDLLSKRLTAELLRLLCAEPQIKEQVKLYEGIPILLSLLHSDHLKLLWSVIWILVQVCEDPETSVEIRIWGGIKQLLHILQGDRNFVSDRSSIGSLSSANAAGRIQQLHLSEDLSPGEIEENTVSLQAACCAALTELALNDTNAHQVVQENGVYTIAKLILPNKQSNAAQTNLLQCYAFRTLRFLFSMERNRPLFKRLFPTDLFETFIDIGHYVRDIGAYKDLVSQLNLLLEDELKQIAENIESINQKKAPLKYIGDYAVLDHLGSGAFGCVYKVRKRSGQNLLAMKEVNLHNPAFGKDKKDRDSSVKNIVSELTIIKEQLYHPNVVRYYKTFLENDRLYIVMELIEGAPLGEHFNSLKEKHHHFSEERLWKIFIQLCLALRYLHKEKRIVHRDLTPNNIMLGDKDKVTVTDFGLAKQKQESSKLTSMVGTILYSCPEVLKSEPYGEKADVWAAGCILYQMATLSPPFCSTNMLSLATKIVEAVYEPVPEGIYSEKVTDTIRRCLTPDAEARPDIVEVSSMISDVMMKYLDRLSTSQLALERKLERERRRTQRYFMEANRNAVTCHHELALLSQETFEKASLSSSSSGAASLKSELSESAELPGEGCHIPCGKEEDRVCEEVLSEDNFQLESVEKDLYSELDDELDVSDNCSSSSSSPLKESTFSILKRSFSASGRERHSQARDFIAGLGSRPRPASAGIAVSQRKVRQICDPIQQILIQLHKVIYITQRVG
IRESfinder result
IRESfinder score
0.614636018
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page