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mmu_circNek10_1929
Basic information of circular RNA
PanCircBase ID:
mmu_circNek10_1929
mm39_Chr. Position ID:
chr14|7538442|7633620|-
Gene name:
Nek10
Transcript:
ENSMUST00000224491.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
20
Exon/intron indexes:
25,24,23,22,21,20,19,18,17,16,15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,616,46192,65585,65806,67819,69632,70266,70479,71961,73460,75583,77337,80336,84629,85743,87406,88456,90716,95093
Genomic length:
95178
Exon/intron sizes in nt:
71,130,76,103,122,46,138,129,103,65,78,62,140,225,87,80,68,79,42,85
Flanking exon/introns:
chr14:7532189-7538442|chr14:7633620-7641221
Splice length:
1929
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGAGTGGGTTAATCGTGCTCCATCCATTCATTTTCTGAGAGTGTTAATTTGTCTGAGGCTGCTGATGCGGGATCCATGTTATCAGGAAATACTCCATAAATTGGGTGGTATTGAAGACCTTGCTCAGTACATGGAGATCGTGGCCAACGAGTACCTGGGCTACGCTGAGGAGCAGCACTGTGTGGACAAGCTGGTCAATATGACGTATATTTTTCAAAAACTTGCTGCTGTGAAAGACCAAAGAGAATGGGTTACTGCAAGTGGAGCCCACAAGACATTAGTGAGTTTGCTTGGTGCCCGAGACACCACTGTCCTCTTGGGTGCTCTGCTGGCACTGGCCAGCTTAGCAGAGAGTTCAGAGTGTAGGGAGAAGATCAGTGAACTCAACGTAGTAGAAAATCTGTTGATGATTCTGCACGAATATGATTTACTCTCCAAAAGACTCACTGCCGAGCTCCTGCGCCTGCTTTGTGCTGAGCCCCAGATCAAGGAGCAGGTGAAACTCTATGAAGGGATCCCCATCCTGCTCAGTCTGCTTCATTCTGATCACTTGAAGCTGCTGTGGAGTGTGATCTGGATTCTGGTCCAGGTGTGTGAGGACCCGGAGACTAGTGTGGAAATCCGAATCTGGGGTGGCATCAAGCAGCTCCTTCATATTTTACAAGGAGACAGAAATTTTGTTTCTGACCGTTCTTCCATCGGAAGCCTGTCCAGTGCAAATGCCGCAGGACGCATCCAGCAGCTTCATTTGTCAGAAGATTTAAGCCCTGGGGAAATCGAGGAAAATACTGTCTCTCTCCAAGCAGCCTGCTGTGCTGCCCTCACCGAGCTGGCCCTCAATGATACCAATGCCCACCAAGTGGTACAGGAAAATGGTGTATATACAATAGCAAAATTAATTTTACCAAATAAACAATCGAATGCAGCACAAACTAATCTACTACAGTGTTATGCTTTCAGAACCCTGAGGTTTCTCTTCAGTATGGAAAGGAACAGGCCACTCTTTAAAAGACTTTTTCCCACCGACCTGTTTGAGACCTTCATTGACATAGGACATTACGTTCGTGATATTGGTGCTTATAAGGACTTGGTATCACAGTTGAATTTACTATTGGAAGATGAGCTGAAGCAAATTGCTGAGAATATTGAAAGCATCAATCAGAAGAAAGCGCCCTTGAAGTACATAGGTGACTATGCTGTGTTGGACCACCTTGGAAGTGGAGCTTTTGGCTGTGTTTATAAGGTTAGAAAGCGTAGTGGTCAAAATCTTTTAGCAATGAAGGAGGTCAATTTGCATAACCCAGCATTTGGAAAGGATAAGAAAGACCGAGACAGCAGTGTCAAGAACATTGTTTCTGAATTAACAATAATTAAGGAGCAGCTTTATCATCCCAATGTTGTACGTTATTATAAAACATTTTTGGAAAATGACAGGTTGTATATCGTTATGGAGCTGATAGAAGGAGCCCCACTTGGAGAGCACTTTAATTCTTTGAAGGAAAAACATCACCATTTCAGTGAAGAGCGACTGTGGAAAATATTTATACAGCTGTGCTTAGCTCTTCGGTATCTGCACAAGGAGAAGAGGATTGTTCACAGAGATCTCACGCCAAACAACATTATGCTGGGAGATAAGGACAAAGTGACAGTTACTGACTTTGGCCTGGCAAAGCAAAAACAGGAAAGCAGTAAGCTTACATCTATGGTGGGAACGATCCTCTATTCTTGCCCAGAGGTCCTGAAGAGTGAGCCATATGGAGAGAAGGCCGATGTCTGGGCTGCTGGCTGCATCCTTTATCAGATGGCGACTCTAAGTCCTCCCTTCTGTAGCACCAACATGCTCTCCTTGGCTACTAAAATAGTGGAGGCTGTATATGAGCCAGTGCCAGAAGGTATCTACTCTGAAAAAGTGACAGATACCATTAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACATGCTCTCCTTGGCT
60.32
GCATCAGCAGCCTCAGACAA
60.68
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACATGCTCTCCTTGGCT
60.32
AACATGGATCCCGCATCAGC
60.82
177
PCR template sequence:
GCACCAACATGCTCTCCTTGGCTACTAAAATAGTGGAGGCTGTATATGAGCCAGTGCCAGAAGGTATCTACTCTGAAAAAGTGACAGATACCATTAGAAGAGAGTGGGTTAATCGTGCTCCATCCATTCATTTTCTGAGAGTGTTAATTTGTCTGAGGCTGCTGATGCGGGATCCATGTTATCAGGAAATACTCCATAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
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-322-5p(1), mmu-miR-106b-5p(1), mmu-miR-185-5p(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-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
ATACCATTAGAAGAGAGTGGGTTAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNEK10_1929_ORF_1
1.1415
0.166674677
1
3792
ORF sequence:
ATGCGGGATCCATGTTATCAGGAAATACTCCATAAATTGGGTGGTATTGAAGACCTTGCTCAGTACATGGAGATCGTGGCCAACGAGTACCTGGGCTACGCTGAGGAGCAGCACTGTGTGGACAAGCTGGTCAATATGACGTATATTTTTCAAAAACTTGCTGCTGTGAAAGACCAAAGAGAATGGGTTACTGCAAGTGGAGCCCACAAGACATTAGTGAGTTTGCTTGGTGCCCGAGACACCACTGTCCTCTTGGGTGCTCTGCTGGCACTGGCCAGCTTAGCAGAGAGTTCAGAGTGTAGGGAGAAGATCAGTGAACTCAACGTAGTAGAAAATCTGTTGATGATTCTGCACGAATATGATTTACTCTCCAAAAGACTCACTGCCGAGCTCCTGCGCCTGCTTTGTGCTGAGCCCCAGATCAAGGAGCAGGTGAAACTCTATGAAGGGATCCCCATCCTGCTCAGTCTGCTTCATTCTGATCACTTGAAGCTGCTGTGGAGTGTGATCTGGATTCTGGTCCAGGTGTGTGAGGACCCGGAGACTAGTGTGGAAATCCGAATCTGGGGTGGCATCAAGCAGCTCCTTCATATTTTACAAGGAGACAGAAATTTTGTTTCTGACCGTTCTTCCATCGGAAGCCTGTCCAGTGCAAATGCCGCAGGACGCATCCAGCAGCTTCATTTGTCAGAAGATTTAAGCCCTGGGGAAATCGAGGAAAATACTGTCTCTCTCCAAGCAGCCTGCTGTGCTGCCCTCACCGAGCTGGCCCTCAATGATACCAATGCCCACCAAGTGGTACAGGAAAATGGTGTATATACAATAGCAAAATTAATTTTACCAAATAAACAATCGAATGCAGCACAAACTAATCTACTACAGTGTTATGCTTTCAGAACCCTGAGGTTTCTCTTCAGTATGGAAAGGAACAGGCCACTCTTTAAAAGACTTTTTCCCACCGACCTGTTTGAGACCTTCATTGACATAGGACATTACGTTCGTGATATTGGTGCTTATAAGGACTTGGTATCACAGTTGAATTTACTATTGGAAGATGAGCTGAAGCAAATTGCTGAGAATATTGAAAGCATCAATCAGAAGAAAGCGCCCTTGAAGTACATAGGTGACTATGCTGTGTTGGACCACCTTGGAAGTGGAGCTTTTGGCTGTGTTTATAAGGTTAGAAAGCGTAGTGGTCAAAATCTTTTAGCAATGAAGGAGGTCAATTTGCATAACCCAGCATTTGGAAAGGATAAGAAAGACCGAGACAGCAGTGTCAAGAACATTGTTTCTGAATTAACAATAATTAAGGAGCAGCTTTATCATCCCAATGTTGTACGTTATTATAAAACATTTTTGGAAAATGACAGGTTGTATATCGTTATGGAGCTGATAGAAGGAGCCCCACTTGGAGAGCACTTTAATTCTTTGAAGGAAAAACATCACCATTTCAGTGAAGAGCGACTGTGGAAAATATTTATACAGCTGTGCTTAGCTCTTCGGTATCTGCACAAGGAGAAGAGGATTGTTCACAGAGATCTCACGCCAAACAACATTATGCTGGGAGATAAGGACAAAGTGACAGTTACTGACTTTGGCCTGGCAAAGCAAAAACAGGAAAGCAGTAAGCTTACATCTATGGTGGGAACGATCCTCTATTCTTGCCCAGAGGTCCTGAAGAGTGAGCCATATGGAGAGAAGGCCGATGTCTGGGCTGCTGGCTGCATCCTTTATCAGATGGCGACTCTAAGTCCTCCCTTCTGTAGCACCAACATGCTCTCCTTGGCTACTAAAATAGTGGAGGCTGTATATGAGCCAGTGCCAGAAGGTATCTACTCTGAAAAAGTGACAGATACCATTAGAAGAGAGTGGGTTAATCGTGCTCCATCCATTCATTTTCTGAGAGTGTTAATTTGTCTGAGGCTGCTGATGCGGGATCCATGTTATCAGGAAATACTCCATAAATTGGGTGGTATTGAAGACCTTGCTCAGTACATGGAGATCGTGGCCAACGAGTACCTGGGCTACGCTGAGGAGCAGCACTGTGTGGACAAGCTGGTCAATATGACGTATATTTTTCAAAAACTTGCTGCTGTGAAAGACCAAAGAGAATGGGTTACTGCAAGTGGAGCCCACAAGACATTAGTGAGTTTGCTTGGTGCCCGAGACACCACTGTCCTCTTGGGTGCTCTGCTGGCACTGGCCAGCTTAGCAGAGAGTTCAGAGTGTAGGGAGAAGATCAGTGAACTCAACGTAGTAGAAAATCTGTTGATGATTCTGCACGAATATGATTTACTCTCCAAAAGACTCACTGCCGAGCTCCTGCGCCTGCTTTGTGCTGAGCCCCAGATCAAGGAGCAGGTGAAACTCTATGAAGGGATCCCCATCCTGCTCAGTCTGCTTCATTCTGATCACTTGAAGCTGCTGTGGAGTGTGATCTGGATTCTGGTCCAGGTGTGTGAGGACCCGGAGACTAGTGTGGAAATCCGAATCTGGGGTGGCATCAAGCAGCTCCTTCATATTTTACAAGGAGACAGAAATTTTGTTTCTGACCGTTCTTCCATCGGAAGCCTGTCCAGTGCAAATGCCGCAGGACGCATCCAGCAGCTTCATTTGTCAGAAGATTTAAGCCCTGGGGAAATCGAGGAAAATACTGTCTCTCTCCAAGCAGCCTGCTGTGCTGCCCTCACCGAGCTGGCCCTCAATGATACCAATGCCCACCAAGTGGTACAGGAAAATGGTGTATATACAATAGCAAAATTAATTTTACCAAATAAACAATCGAATGCAGCACAAACTAATCTACTACAGTGTTATGCTTTCAGAACCCTGAGGTTTCTCTTCAGTATGGAAAGGAACAGGCCACTCTTTAAAAGACTTTTTCCCACCGACCTGTTTGAGACCTTCATTGACATAGGACATTACGTTCGTGATATTGGTGCTTATAAGGACTTGGTATCACAGTTGAATTTACTATTGGAAGATGAGCTGAAGCAAATTGCTGAGAATATTGAAAGCATCAATCAGAAGAAAGCGCCCTTGAAGTACATAGGTGACTATGCTGTGTTGGACCACCTTGGAAGTGGAGCTTTTGGCTGTGTTTATAAGGTTAGAAAGCGTAGTGGTCAAAATCTTTTAGCAATGAAGGAGGTCAATTTGCATAACCCAGCATTTGGAAAGGATAAGAAAGACCGAGACAGCAGTGTCAAGAACATTGTTTCTGAATTAACAATAATTAAGGAGCAGCTTTATCATCCCAATGTTGTACGTTATTATAAAACATTTTTGGAAAATGACAGGTTGTATATCGTTATGGAGCTGATAGAAGGAGCCCCACTTGGAGAGCACTTTAATTCTTTGAAGGAAAAACATCACCATTTCAGTGAAGAGCGACTGTGGAAAATATTTATACAGCTGTGCTTAGCTCTTCGGTATCTGCACAAGGAGAAGAGGATTGTTCACAGAGATCTCACGCCAAACAACATTATGCTGGGAGATAAGGACAAAGTGACAGTTACTGACTTTGGCCTGGCAAAGCAAAAACAGGAAAGCAGTAAGCTTACATCTATGGTGGGAACGATCCTCTATTCTTGCCCAGAGGTCCTGAAGAGTGAGCCATATGGAGAGAAGGCCGATGTCTGGGCTGCTGGCTGCATCCTTTATCAGATGGCGACTCTAAGTCCTCCCTTCTGTAGCACCAACATGCTCTCCTTGGCTACTAAAATAGTGGAGGCTGTATATGAGCCAGTGCCAGAAGGTATCTACTCTGAAAAAGTGACAGATACCATTAGA
Peptide sequence:
MRDPCYQEILHKLGGIEDLAQYMEIVANEYLGYAEEQHCVDKLVNMTYIFQKLAAVKDQREWVTASGAHKTLVSLLGARDTTVLLGALLALASLAESSECREKISELNVVENLLMILHEYDLLSKRLTAELLRLLCAEPQIKEQVKLYEGIPILLSLLHSDHLKLLWSVIWILVQVCEDPETSVEIRIWGGIKQLLHILQGDRNFVSDRSSIGSLSSANAAGRIQQLHLSEDLSPGEIEENTVSLQAACCAALTELALNDTNAHQVVQENGVYTIAKLILPNKQSNAAQTNLLQCYAFRTLRFLFSMERNRPLFKRLFPTDLFETFIDIGHYVRDIGAYKDLVSQLNLLLEDELKQIAENIESINQKKAPLKYIGDYAVLDHLGSGAFGCVYKVRKRSGQNLLAMKEVNLHNPAFGKDKKDRDSSVKNIVSELTIIKEQLYHPNVVRYYKTFLENDRLYIVMELIEGAPLGEHFNSLKEKHHHFSEERLWKIFIQLCLALRYLHKEKRIVHRDLTPNNIMLGDKDKVTVTDFGLAKQKQESSKLTSMVGTILYSCPEVLKSEPYGEKADVWAAGCILYQMATLSPPFCSTNMLSLATKIVEAVYEPVPEGIYSEKVTDTIRREWVNRAPSIHFLRVLICLRLLMRDPCYQEILHKLGGIEDLAQYMEIVANEYLGYAEEQHCVDKLVNMTYIFQKLAAVKDQREWVTASGAHKTLVSLLGARDTTVLLGALLALASLAESSECREKISELNVVENLLMILHEYDLLSKRLTAELLRLLCAEPQIKEQVKLYEGIPILLSLLHSDHLKLLWSVIWILVQVCEDPETSVEIRIWGGIKQLLHILQGDRNFVSDRSSIGSLSSANAAGRIQQLHLSEDLSPGEIEENTVSLQAACCAALTELALNDTNAHQVVQENGVYTIAKLILPNKQSNAAQTNLLQCYAFRTLRFLFSMERNRPLFKRLFPTDLFETFIDIGHYVRDIGAYKDLVSQLNLLLEDELKQIAENIESINQKKAPLKYIGDYAVLDHLGSGAFGCVYKVRKRSGQNLLAMKEVNLHNPAFGKDKKDRDSSVKNIVSELTIIKEQLYHPNVVRYYKTFLENDRLYIVMELIEGAPLGEHFNSLKEKHHHFSEERLWKIFIQLCLALRYLHKEKRIVHRDLTPNNIMLGDKDKVTVTDFGLAKQKQESSKLTSMVGTILYSCPEVLKSEPYGEKADVWAAGCILYQMATLSPPFCSTNMLSLATKIVEAVYEPVPEGIYSEKVTDTIR
IRESfinder result
IRESfinder score
0.672020468
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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