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mmu_circSel1l3_1512
Basic information of circular RNA
PanCircBase ID:
mmu_circSel1l3_1512
mm39_Chr. Position ID:
chr5|53289135|53332211|-
Gene name:
Sel1l3
Transcript:
ENSMUST00000031090.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,3979,5992,8014,12248,13641,22377,23759,38563,40780,42943
Genomic length:
43076
Exon/intron sizes in nt:
84,12,81,77,63,14,11,20,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:53280818-53289135|chr5:53332211-53339063
Splice length:
1512
Other database IDs:
circAtlas: mmu-Sel1l3_0014
circBase: hsa_circ_0126059, circAtlas: hsa-SEL1L3_0011, CIRCpedia: HSA_CIRCpedia_123833
Human Ortholog IDs:
Mature spliced Sequence:
CTTCCATGAAGACTTCTATTATAACGACACAGCTGGCTACTTCATTATTGGAGGGAGCAGGTACGTGGCCGGCATCGAAGGGTTTTTTGGACCGGTGAAATACTATCGCCTCCGCAGCCTACACCCGGCACAGGTTCTTAATCCCTTCCTTGAGAAGGAACTGGCTGAACAAATCAAGCTATACTATGAGCGGTGTACTGAGGTCCAGGATATAATATCCTCGTATGCTGCAACAGTCCAGGTTGGGGGTGAGAGGCGAGAGACATGTGACTTCCATAACTCCTACCTGGACCTCAAGCGCAAGTATGGGAGAGCCGAGGTGTGCAGAGGCTTGCCCTGGGAGAAGGAACTGAGAGACAGGCACCCCAGCTTGTTCCAGAGCCTGCTGCAAATGGACCTGCTGACCGTGCCATGGAACCAAAATGACTCCGTATTAGAAATCGGTGCAAGGATATTTGAGAAGGCTGTAAAGAGACTCTCTGGCGTTGATGGCCTTCACCAAATTAGCTCTGCCATCCCCTTTCTGATGGATTCCAGCTGCTGTGGATACCATAAAGCATCCTACTACCTCACCGTCTTCTATGAAACTGGATTAAATGGACCTCGGGATCAGCTGCAGGGCATGCTATACAGTCTGGTTGGAGGCCAGGGCAGTGAGAGACTGTCATCAATGAATCTTGGGTACAAACACTACCAGGGTGTTGACAGCTACCCACTGGACTGGGAACTGTCCTATGCCTACTACAGCAACATTGCTACAAAGACACCCCTTGATCAGCACACACTGCAGGGAGACCAGGCATATGTTGAAACTATTAGGCTCAAAGATGATGAAATACTCAAAGTCCAAACCAAAGAAGATGGCGATGTCTTTATGTGGCTGAAGCACGAAGCCACCCGTGGCAACGCAGCAGCACAGCAACGATTGGCTCAGATGCTCTTCTGGGGACAGCAAGGGGTGGCCAAGAACCCTGAGGCCGCTATCGAGTGGTACGCGAAGGGGGCCCTGGAGACGGAGGATCCGGCGCTGATATATGACTACGCCATTGTGCTATTCAAGGGTCAAGGAGTTAAAAAGAACAGACGGCTCGCCTTAGAGCTCATGAAGAAAGCTGCTTCCAAGGGATTGCATCAGGCTGTCAATGGCCTGGGATGGTATTACCACAAATTCAGGAAAAATTATGCCAAAGCAGCCAAGTACTGGTTAAAGGCAGAAGAAATGGGGAACCCAGATGCGTCTTACAATCTTGGGGTCCTGTATTTGGATGGCATTTTCCCGGGAGTTCCTGGAAGGAATCTGACACTGGCTGGTGAATACTTCCATAAAGCTGCACAAGGTGGACACATCGAAGGGACATTGTGGTGTTCCCTTTACTATATCACCGGCAACCTGGAGACCTTCCCTAGAGATCCAGAGAAAGCTGTTGTATGGGCAAAGCATGTGGCCGAAAAAAACGGATACCTGGGACACGTCATCCGCAAAGGTCTCAACGCCTACCTGGAGGGCCTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAAGCATGTGGCCGAAAA
60.6
ACGTACCTGCTCCCTCCAAT
60.62
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGTTGTATGGGCAAAGCA
59.4
ACGTACCTGCTCCCTCCAAT
60.62
158
PCR template sequence:
CAGAGAAAGCTGTTGTATGGGCAAAGCATGTGGCCGAAAAAAACGGATACCTGGGACACGTCATCCGCAAAGGTCTCAACGCCTACCTGGAGGGCCTGTGCTTCCATGAAGACTTCTATTATAACGACACAGCTGGCTACTTCATTATTGGAGGGAGCAGGTACGTGGCCGGCATCGAAGGGTTTTTTGGACCGGTGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-let-7b-5p(2), mmu-miR-98-5p(2), mmu-let-7a-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7c-5p(1), mmu-miR-196a-5p(1), mmu-miR-214-3p(1), mmu-let-7d-5p(1), mmu-miR-183-5p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-342-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TGGAGGGCCTGTGCTTCCATGAAGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEL1L3_1512_ORF_1
1.1443
0.276625118
0.999999956
2631
ORF sequence:
ATGGACCTGCTGACCGTGCCATGGAACCAAAATGACTCCGTATTAGAAATCGGTGCAAGGATATTTGAGAAGGCTGTAAAGAGACTCTCTGGCGTTGATGGCCTTCACCAAATTAGCTCTGCCATCCCCTTTCTGATGGATTCCAGCTGCTGTGGATACCATAAAGCATCCTACTACCTCACCGTCTTCTATGAAACTGGATTAAATGGACCTCGGGATCAGCTGCAGGGCATGCTATACAGTCTGGTTGGAGGCCAGGGCAGTGAGAGACTGTCATCAATGAATCTTGGGTACAAACACTACCAGGGTGTTGACAGCTACCCACTGGACTGGGAACTGTCCTATGCCTACTACAGCAACATTGCTACAAAGACACCCCTTGATCAGCACACACTGCAGGGAGACCAGGCATATGTTGAAACTATTAGGCTCAAAGATGATGAAATACTCAAAGTCCAAACCAAAGAAGATGGCGATGTCTTTATGTGGCTGAAGCACGAAGCCACCCGTGGCAACGCAGCAGCACAGCAACGATTGGCTCAGATGCTCTTCTGGGGACAGCAAGGGGTGGCCAAGAACCCTGAGGCCGCTATCGAGTGGTACGCGAAGGGGGCCCTGGAGACGGAGGATCCGGCGCTGATATATGACTACGCCATTGTGCTATTCAAGGGTCAAGGAGTTAAAAAGAACAGACGGCTCGCCTTAGAGCTCATGAAGAAAGCTGCTTCCAAGGGATTGCATCAGGCTGTCAATGGCCTGGGATGGTATTACCACAAATTCAGGAAAAATTATGCCAAAGCAGCCAAGTACTGGTTAAAGGCAGAAGAAATGGGGAACCCAGATGCGTCTTACAATCTTGGGGTCCTGTATTTGGATGGCATTTTCCCGGGAGTTCCTGGAAGGAATCTGACACTGGCTGGTGAATACTTCCATAAAGCTGCACAAGGTGGACACATCGAAGGGACATTGTGGTGTTCCCTTTACTATATCACCGGCAACCTGGAGACCTTCCCTAGAGATCCAGAGAAAGCTGTTGTATGGGCAAAGCATGTGGCCGAAAAAAACGGATACCTGGGACACGTCATCCGCAAAGGTCTCAACGCCTACCTGGAGGGCCTGTGCTTCCATGAAGACTTCTATTATAACGACACAGCTGGCTACTTCATTATTGGAGGGAGCAGGTACGTGGCCGGCATCGAAGGGTTTTTTGGACCGGTGAAATACTATCGCCTCCGCAGCCTACACCCGGCACAGGTTCTTAATCCCTTCCTTGAGAAGGAACTGGCTGAACAAATCAAGCTATACTATGAGCGGTGTACTGAGGTCCAGGATATAATATCCTCGTATGCTGCAACAGTCCAGGTTGGGGGTGAGAGGCGAGAGACATGTGACTTCCATAACTCCTACCTGGACCTCAAGCGCAAGTATGGGAGAGCCGAGGTGTGCAGAGGCTTGCCCTGGGAGAAGGAACTGAGAGACAGGCACCCCAGCTTGTTCCAGAGCCTGCTGCAAATGGACCTGCTGACCGTGCCATGGAACCAAAATGACTCCGTATTAGAAATCGGTGCAAGGATATTTGAGAAGGCTGTAAAGAGACTCTCTGGCGTTGATGGCCTTCACCAAATTAGCTCTGCCATCCCCTTTCTGATGGATTCCAGCTGCTGTGGATACCATAAAGCATCCTACTACCTCACCGTCTTCTATGAAACTGGATTAAATGGACCTCGGGATCAGCTGCAGGGCATGCTATACAGTCTGGTTGGAGGCCAGGGCAGTGAGAGACTGTCATCAATGAATCTTGGGTACAAACACTACCAGGGTGTTGACAGCTACCCACTGGACTGGGAACTGTCCTATGCCTACTACAGCAACATTGCTACAAAGACACCCCTTGATCAGCACACACTGCAGGGAGACCAGGCATATGTTGAAACTATTAGGCTCAAAGATGATGAAATACTCAAAGTCCAAACCAAAGAAGATGGCGATGTCTTTATGTGGCTGAAGCACGAAGCCACCCGTGGCAACGCAGCAGCACAGCAACGATTGGCTCAGATGCTCTTCTGGGGACAGCAAGGGGTGGCCAAGAACCCTGAGGCCGCTATCGAGTGGTACGCGAAGGGGGCCCTGGAGACGGAGGATCCGGCGCTGATATATGACTACGCCATTGTGCTATTCAAGGGTCAAGGAGTTAAAAAGAACAGACGGCTCGCCTTAGAGCTCATGAAGAAAGCTGCTTCCAAGGGATTGCATCAGGCTGTCAATGGCCTGGGATGGTATTACCACAAATTCAGGAAAAATTATGCCAAAGCAGCCAAGTACTGGTTAAAGGCAGAAGAAATGGGGAACCCAGATGCGTCTTACAATCTTGGGGTCCTGTATTTGGATGGCATTTTCCCGGGAGTTCCTGGAAGGAATCTGACACTGGCTGGTGAATACTTCCATAAAGCTGCACAAGGTGGACACATCGAAGGGACATTGTGGTGTTCCCTTTACTATATCACCGGCAACCTGGAGACCTTCCCTAGAGATCCAGAGAAAGCTGTTGTATGGGCAAAGCATGTGGCCGAAAAAAACGGATACCTGGGACACGTCATCCGCAAAGGTCTCAACGCCTACCTGGAGGGCCTG
Peptide sequence:
MDLLTVPWNQNDSVLEIGARIFEKAVKRLSGVDGLHQISSAIPFLMDSSCCGYHKASYYLTVFYETGLNGPRDQLQGMLYSLVGGQGSERLSSMNLGYKHYQGVDSYPLDWELSYAYYSNIATKTPLDQHTLQGDQAYVETIRLKDDEILKVQTKEDGDVFMWLKHEATRGNAAAQQRLAQMLFWGQQGVAKNPEAAIEWYAKGALETEDPALIYDYAIVLFKGQGVKKNRRLALELMKKAASKGLHQAVNGLGWYYHKFRKNYAKAAKYWLKAEEMGNPDASYNLGVLYLDGIFPGVPGRNLTLAGEYFHKAAQGGHIEGTLWCSLYYITGNLETFPRDPEKAVVWAKHVAEKNGYLGHVIRKGLNAYLEGLCFHEDFYYNDTAGYFIIGGSRYVAGIEGFFGPVKYYRLRSLHPAQVLNPFLEKELAEQIKLYYERCTEVQDIISSYAATVQVGGERRETCDFHNSYLDLKRKYGRAEVCRGLPWEKELRDRHPSLFQSLLQMDLLTVPWNQNDSVLEIGARIFEKAVKRLSGVDGLHQISSAIPFLMDSSCCGYHKASYYLTVFYETGLNGPRDQLQGMLYSLVGGQGSERLSSMNLGYKHYQGVDSYPLDWELSYAYYSNIATKTPLDQHTLQGDQAYVETIRLKDDEILKVQTKEDGDVFMWLKHEATRGNAAAQQRLAQMLFWGQQGVAKNPEAAIEWYAKGALETEDPALIYDYAIVLFKGQGVKKNRRLALELMKKAASKGLHQAVNGLGWYYHKFRKNYAKAAKYWLKAEEMGNPDASYNLGVLYLDGIFPGVPGRNLTLAGEYFHKAAQGGHIEGTLWCSLYYITGNLETFPRDPEKAVVWAKHVAEKNGYLGHVIRKGLNAYLEGL
IRESfinder result
IRESfinder score
0.332598047
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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