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mmu_circTxndc11_1980
Basic information of circular RNA
PanCircBase ID:
mmu_circTxndc11_1980
mm39_Chr. Position ID:
chr16|10897567|10946567|-
Gene name:
Txndc11
Transcript:
ENSMUST00000038424.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,4504,5047,8073,11882,14112,24862,37091,42966,48783
Genomic length:
49000
Exon/intron sizes in nt:
81,110,143,793,201,113,94,130,98,217
Flanking exon/introns:
chr16:10893506-10897567|chr16:10946567-10952131
Splice length:
1980
Other database IDs:
circBase: hsa_circ_0037866, circAtlas: hsa-TXNDC11_0008, CIRCpedia: HSA_CIRCpedia_16325
Human Ortholog IDs:
Mature spliced Sequence:
TCGAGCAAAAGACGTGATAATACCAGCAAAGCCGCCTGTCAGCTTTTTCTCCTCGAGATCTCCGGTCCTTGACCTCTTCCAGGGGCAGCTGGACTATGCTGACCATGTCCGCCAGGATTCTGAGGTGGTGGTGCTGTTCTTCTATGCCCCGTGGTGTGGCCAGTCCATCGCTGCCAGGGCAGAAATTGAGCAGGCAGCCAGCCGGCTTTCTGATCAGGTGTTGTTTGTGGCAATAAACTGTTGGTGGAACCAGGGGAAATGCAGAAAACAGAAGCATTTCTTCTATTTTCCTGTGATACATCTGTATCATCGGAGTTTTGGACCAATCGAATACAAAGGCCCCATGAGTGCTGTTTACATTGAGAAGTTTGTCCGCCGGGCGATGAAGCCGCTTCTCTACATCCCGTCTCAATCAGCATTGCTAGACTTTCTCTCCAGCTATGAGCCTGGAGTACTCGGATACTTTGAATTCAGCGGTTCACCCCAGCCTCCTGGTTACTTGACCTTCTTCACCTCAGCACTGCATTCGTTAAAGAAAGATTACCTAGGAACAGTGCGATTTGGGGTTATCACAGATAAACACCTTGCGAGACTGGTATCCTTAGTGCACTCTGGAAGTGTGTATTTACATAGACATTTCAACACATCACTTGTCTTCCCCAGGGAAGTCATGAACTTCACAGCTGAGAACATCTATAAGTGGGCCTCAGAAAACCAGGAGACCCTCTTCCGATGGCTACAGCCTCATGGAGGCAAGAGTCTGCTGTTGAACAATGAGCTGAAGAAAGGACCAGCACTCTTCCTGTTCATACCGTTTGATCCCCTAGCCGAGAGACATCCTCTTCTAGATGAGATCACCGAAGTGGCCTTGGAATACAATAACTGTCATGGGGACCAGGTGGTAGAGCGCCTCCTTCAGCACCTGCGGCGGGTAGAGGCACCTGTGCTCCAGTCCCTGGCACCAGAGCTGCCAGCTTCACTGCCTGATACTCAGCTGATGGCAGCATCCCCCTGCTGTAACACGGTGGTGCTGCCACAGGGGCCAGCCCTCTCCAGGACTCACAATGTCTGTGAGCTGTGTGTCAACCAGACAGTGGGTGGTACCAGGCCTAGCTCAGTGAGTGTGCCACAGTGCAGCTTCTTCGAGATGGCAGCCGCTCTGGATTCTTTCTACCTCAAGGAGCAGACTTTTTATCATGTGGTGTCGGGCAGCATAGAATGCAGCAATTTTTTAACCTCCTATAGCCCTTTCAGCTACTACACTGCATGTTGCAGGACCATATCCCGGGGCATGGCAAGCTTTACTGGCTCTGAACAGAATGTCTTGACAGCCCCAGCCATCGAGTTCTCTTCCTTAGAGAAGAGCTGTGAGGCCACTGCCCCGAGCTCCATTCCTCACATTGAGGAGAACAGGTACCGCTTTCCTCAAGTGGGCCTCACTAGCACAGCCTTCACGGGCCTGAGCTGCAGAACCAACAAGACCCTGAACATCTACCTTTTGGATTCCAATTTATTTTGGTTATATGCAGAAAGACTGGGTGCCCCGAGCTCTGCTCCTGTGAAGGAGTTTGCCACAATTGTTGATGTGAAAGAAGAATCTCACTATATCCTGGATCCCAAACAAGCCCTCATGAAGTTCACTCTAGAGTCTTTTATTCAAAACTTCAGTGTTCTCTACAGCCCCTTGAAAAGGCATCTCACTGGAAGTGATTCTGCTCAGTTTCCCACTCAGCATTTGATCACGGAAGTGACGACTGATACCTTCTGGGAAGTAACCCTTCGGAAACAGGACGTTCTGCTGCTCTATTATACACAGTGGTGTGGCTTTTGCCCGTCTCTCAATCACATCTTCATCCAGCTAGCTCGGCTCCTGCCAGAGGACACATTTACTGTGGCCAGGATCGACGTGTCTCAGAATGATCTTCCTTGGGAATTCATGGTTGACCGTCTTCCTACCGTTTTGTTTTTTCCCTGCAATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGATCGACGTGTCTCAG
59.9
GACCGGAGATCTCGAGGAGA
59.89
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGATCGACGTGTCTCAG
59.9
TCAAGGACCGGAGATCTCGA
59.74
157
PCR template sequence:
ACACATTTACTGTGGCCAGGATCGACGTGTCTCAGAATGATCTTCCTTGGGAATTCATGGTTGACCGTCTTCCTACCGTTTTGTTTTTTCCCTGCAATAGTCGAGCAAAAGACGTGATAATACCAGCAAAGCCGCCTGTCAGCTTTTTCTCCTCGAGATCTCCGGTCCTTGACCTCTTCCAGGGGCAGCTGGACTATGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
31
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(3), mmu-miR-34c-5p(2), mmu-miR-15b-5p(2), mmu-miR-22-3p(2), mmu-miR-483-5p(2), mmu-miR-34b-5p(2), mmu-miR-155-5p(1), mmu-let-7a-5p(1), mmu-miR-7b-5p(1), mmu-let-7e-5p(1), mmu-miR-30e-5p(1), mmu-miR-26a-5p(1), mmu-miR-322-5p(1), mmu-miR-29b-3p(1), mmu-miR-146a-5p(1), mmu-miR-30a-5p(1), mmu-miR-7a-5p(1), mmu-miR-203-3p(1), mmu-miR-185-5p(1), mmu-miR-139-5p(1), mmu-let-7d-5p(1), mmu-miR-26b-5p(1), mmu-miR-127-5p(1), mmu-miR-383-5p(1), mmu-miR-98-5p(1), mmu-miR-384-3p(1), mmu-miR-1198-5p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-673-5p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCCTGCAATAGTCGAGCAAAAGAC
siRNA sets
TCTTTTGCTCGACTATTGC, CTTTTGCTCGACTATTGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTXNDC11_1980_ORF_1
0.898
0.183775837
1
3615
ORF sequence:
ATGAGTGCTGTTTACATTGAGAAGTTTGTCCGCCGGGCGATGAAGCCGCTTCTCTACATCCCGTCTCAATCAGCATTGCTAGACTTTCTCTCCAGCTATGAGCCTGGAGTACTCGGATACTTTGAATTCAGCGGTTCACCCCAGCCTCCTGGTTACTTGACCTTCTTCACCTCAGCACTGCATTCGTTAAAGAAAGATTACCTAGGAACAGTGCGATTTGGGGTTATCACAGATAAACACCTTGCGAGACTGGTATCCTTAGTGCACTCTGGAAGTGTGTATTTACATAGACATTTCAACACATCACTTGTCTTCCCCAGGGAAGTCATGAACTTCACAGCTGAGAACATCTATAAGTGGGCCTCAGAAAACCAGGAGACCCTCTTCCGATGGCTACAGCCTCATGGAGGCAAGAGTCTGCTGTTGAACAATGAGCTGAAGAAAGGACCAGCACTCTTCCTGTTCATACCGTTTGATCCCCTAGCCGAGAGACATCCTCTTCTAGATGAGATCACCGAAGTGGCCTTGGAATACAATAACTGTCATGGGGACCAGGTGGTAGAGCGCCTCCTTCAGCACCTGCGGCGGGTAGAGGCACCTGTGCTCCAGTCCCTGGCACCAGAGCTGCCAGCTTCACTGCCTGATACTCAGCTGATGGCAGCATCCCCCTGCTGTAACACGGTGGTGCTGCCACAGGGGCCAGCCCTCTCCAGGACTCACAATGTCTGTGAGCTGTGTGTCAACCAGACAGTGGGTGGTACCAGGCCTAGCTCAGTGAGTGTGCCACAGTGCAGCTTCTTCGAGATGGCAGCCGCTCTGGATTCTTTCTACCTCAAGGAGCAGACTTTTTATCATGTGGTGTCGGGCAGCATAGAATGCAGCAATTTTTTAACCTCCTATAGCCCTTTCAGCTACTACACTGCATGTTGCAGGACCATATCCCGGGGCATGGCAAGCTTTACTGGCTCTGAACAGAATGTCTTGACAGCCCCAGCCATCGAGTTCTCTTCCTTAGAGAAGAGCTGTGAGGCCACTGCCCCGAGCTCCATTCCTCACATTGAGGAGAACAGGTACCGCTTTCCTCAAGTGGGCCTCACTAGCACAGCCTTCACGGGCCTGAGCTGCAGAACCAACAAGACCCTGAACATCTACCTTTTGGATTCCAATTTATTTTGGTTATATGCAGAAAGACTGGGTGCCCCGAGCTCTGCTCCTGTGAAGGAGTTTGCCACAATTGTTGATGTGAAAGAAGAATCTCACTATATCCTGGATCCCAAACAAGCCCTCATGAAGTTCACTCTAGAGTCTTTTATTCAAAACTTCAGTGTTCTCTACAGCCCCTTGAAAAGGCATCTCACTGGAAGTGATTCTGCTCAGTTTCCCACTCAGCATTTGATCACGGAAGTGACGACTGATACCTTCTGGGAAGTAACCCTTCGGAAACAGGACGTTCTGCTGCTCTATTATACACAGTGGTGTGGCTTTTGCCCGTCTCTCAATCACATCTTCATCCAGCTAGCTCGGCTCCTGCCAGAGGACACATTTACTGTGGCCAGGATCGACGTGTCTCAGAATGATCTTCCTTGGGAATTCATGGTTGACCGTCTTCCTACCGTTTTGTTTTTTCCCTGCAATAGTCGAGCAAAAGACGTGATAATACCAGCAAAGCCGCCTGTCAGCTTTTTCTCCTCGAGATCTCCGGTCCTTGACCTCTTCCAGGGGCAGCTGGACTATGCTGACCATGTCCGCCAGGATTCTGAGGTGGTGGTGCTGTTCTTCTATGCCCCGTGGTGTGGCCAGTCCATCGCTGCCAGGGCAGAAATTGAGCAGGCAGCCAGCCGGCTTTCTGATCAGGTGTTGTTTGTGGCAATAAACTGTTGGTGGAACCAGGGGAAATGCAGAAAACAGAAGCATTTCTTCTATTTTCCTGTGATACATCTGTATCATCGGAGTTTTGGACCAATCGAATACAAAGGCCCCATGAGTGCTGTTTACATTGAGAAGTTTGTCCGCCGGGCGATGAAGCCGCTTCTCTACATCCCGTCTCAATCAGCATTGCTAGACTTTCTCTCCAGCTATGAGCCTGGAGTACTCGGATACTTTGAATTCAGCGGTTCACCCCAGCCTCCTGGTTACTTGACCTTCTTCACCTCAGCACTGCATTCGTTAAAGAAAGATTACCTAGGAACAGTGCGATTTGGGGTTATCACAGATAAACACCTTGCGAGACTGGTATCCTTAGTGCACTCTGGAAGTGTGTATTTACATAGACATTTCAACACATCACTTGTCTTCCCCAGGGAAGTCATGAACTTCACAGCTGAGAACATCTATAAGTGGGCCTCAGAAAACCAGGAGACCCTCTTCCGATGGCTACAGCCTCATGGAGGCAAGAGTCTGCTGTTGAACAATGAGCTGAAGAAAGGACCAGCACTCTTCCTGTTCATACCGTTTGATCCCCTAGCCGAGAGACATCCTCTTCTAGATGAGATCACCGAAGTGGCCTTGGAATACAATAACTGTCATGGGGACCAGGTGGTAGAGCGCCTCCTTCAGCACCTGCGGCGGGTAGAGGCACCTGTGCTCCAGTCCCTGGCACCAGAGCTGCCAGCTTCACTGCCTGATACTCAGCTGATGGCAGCATCCCCCTGCTGTAACACGGTGGTGCTGCCACAGGGGCCAGCCCTCTCCAGGACTCACAATGTCTGTGAGCTGTGTGTCAACCAGACAGTGGGTGGTACCAGGCCTAGCTCAGTGAGTGTGCCACAGTGCAGCTTCTTCGAGATGGCAGCCGCTCTGGATTCTTTCTACCTCAAGGAGCAGACTTTTTATCATGTGGTGTCGGGCAGCATAGAATGCAGCAATTTTTTAACCTCCTATAGCCCTTTCAGCTACTACACTGCATGTTGCAGGACCATATCCCGGGGCATGGCAAGCTTTACTGGCTCTGAACAGAATGTCTTGACAGCCCCAGCCATCGAGTTCTCTTCCTTAGAGAAGAGCTGTGAGGCCACTGCCCCGAGCTCCATTCCTCACATTGAGGAGAACAGGTACCGCTTTCCTCAAGTGGGCCTCACTAGCACAGCCTTCACGGGCCTGAGCTGCAGAACCAACAAGACCCTGAACATCTACCTTTTGGATTCCAATTTATTTTGGTTATATGCAGAAAGACTGGGTGCCCCGAGCTCTGCTCCTGTGAAGGAGTTTGCCACAATTGTTGATGTGAAAGAAGAATCTCACTATATCCTGGATCCCAAACAAGCCCTCATGAAGTTCACTCTAGAGTCTTTTATTCAAAACTTCAGTGTTCTCTACAGCCCCTTGAAAAGGCATCTCACTGGAAGTGATTCTGCTCAGTTTCCCACTCAGCATTTGATCACGGAAGTGACGACTGATACCTTCTGGGAAGTAACCCTTCGGAAACAGGACGTTCTGCTGCTCTATTATACACAGTGGTGTGGCTTTTGCCCGTCTCTCAATCACATCTTCATCCAGCTAGCTCGGCTCCTGCCAGAGGACACATTTACTGTGGCCAGGATCGACGTGTCTCAGAATGATCTTCCTTGGGAATTCATGGTTGACCGTCTTCCTACCGTTTTGTTTTTTCCCTGCAAT
Peptide sequence:
MSAVYIEKFVRRAMKPLLYIPSQSALLDFLSSYEPGVLGYFEFSGSPQPPGYLTFFTSALHSLKKDYLGTVRFGVITDKHLARLVSLVHSGSVYLHRHFNTSLVFPREVMNFTAENIYKWASENQETLFRWLQPHGGKSLLLNNELKKGPALFLFIPFDPLAERHPLLDEITEVALEYNNCHGDQVVERLLQHLRRVEAPVLQSLAPELPASLPDTQLMAASPCCNTVVLPQGPALSRTHNVCELCVNQTVGGTRPSSVSVPQCSFFEMAAALDSFYLKEQTFYHVVSGSIECSNFLTSYSPFSYYTACCRTISRGMASFTGSEQNVLTAPAIEFSSLEKSCEATAPSSIPHIEENRYRFPQVGLTSTAFTGLSCRTNKTLNIYLLDSNLFWLYAERLGAPSSAPVKEFATIVDVKEESHYILDPKQALMKFTLESFIQNFSVLYSPLKRHLTGSDSAQFPTQHLITEVTTDTFWEVTLRKQDVLLLYYTQWCGFCPSLNHIFIQLARLLPEDTFTVARIDVSQNDLPWEFMVDRLPTVLFFPCNSRAKDVIIPAKPPVSFFSSRSPVLDLFQGQLDYADHVRQDSEVVVLFFYAPWCGQSIAARAEIEQAASRLSDQVLFVAINCWWNQGKCRKQKHFFYFPVIHLYHRSFGPIEYKGPMSAVYIEKFVRRAMKPLLYIPSQSALLDFLSSYEPGVLGYFEFSGSPQPPGYLTFFTSALHSLKKDYLGTVRFGVITDKHLARLVSLVHSGSVYLHRHFNTSLVFPREVMNFTAENIYKWASENQETLFRWLQPHGGKSLLLNNELKKGPALFLFIPFDPLAERHPLLDEITEVALEYNNCHGDQVVERLLQHLRRVEAPVLQSLAPELPASLPDTQLMAASPCCNTVVLPQGPALSRTHNVCELCVNQTVGGTRPSSVSVPQCSFFEMAAALDSFYLKEQTFYHVVSGSIECSNFLTSYSPFSYYTACCRTISRGMASFTGSEQNVLTAPAIEFSSLEKSCEATAPSSIPHIEENRYRFPQVGLTSTAFTGLSCRTNKTLNIYLLDSNLFWLYAERLGAPSSAPVKEFATIVDVKEESHYILDPKQALMKFTLESFIQNFSVLYSPLKRHLTGSDSAQFPTQHLITEVTTDTFWEVTLRKQDVLLLYYTQWCGFCPSLNHIFIQLARLLPEDTFTVARIDVSQNDLPWEFMVDRLPTVLFFPCN
IRESfinder result
IRESfinder score
0.680456427
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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