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mmu_circDgkb_1599
Basic information of circular RNA
PanCircBase ID:
mmu_circDgkb_1599
mm39_Chr. Position ID:
chr12|38150362|38278122|+
Gene name:
Dgkb
Transcript:
ENSMUST00000220990.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19
Exon/intron offsets:
0,14169,20242,23805,26900,36177,39041,39206,47139,66379,73363,84534,89696,113939,115655,127599
Genomic length:
127760
Exon/intron sizes in nt:
154,141,50,75,120,118,89,117,99,33,117,74,75,86,90,161
Flanking exon/introns:
chr12:38134242-38150362|chr12:38278122-38379991
Splice length:
1599
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223309, circAtlas: mmu-Dgkb_0012
circAtlas: hsa-DGKB_0067, CIRCpedia: HSA_CIRCpedia_121482
Human Ortholog IDs:
Mature spliced Sequence:
ACCATAGATTTTGAAGGCTTCAAGCTATTCATGAAGACCTTTCTGGAAGCTGAGCTGCCTGACGATTTCACCGCCCACCTTTTTATGTCATTCAGCAACAAATTTCCCCATTCTAGCCCAAATGTAAAGAGTAAGCCCGCTCTTCTTTCAGGTGGTCTCAGGATGAATAAGGGTGCCATCACCCCTCCACGTTCCTCTCCAGCAAATACATGCTCCCCAGAAGTGATCCACCTCAAGGATATCGTCTGCTACCTGTCTCTTCTCGAAAGAGGAAGACCCGAGGATAAGCTCGAGTTTATGTTTCGCCTTTATGACACCGATGGGAATGGCTTCCTGGACAGCTCGGAATTAGAAAATATTATTGGTCAGATGATGCACGTGGCAGAGTACCTCGAATGGGATGTTACCGAACTTAATCCGATCCTTCATGAAATGATGGAAGAAATTGACTATGACCGGGATGGCACTGTGTCTCTGGAGGAGTGGATTCAAGGAGGAATGACAACTATCCCACTTCTAGTCCTGCTGGGCTTGGAGAATAATGTGAAGGATGATGGACAGCATGTGTGGCGACTCAAGCACTTTAACAAGCCTGCCTACTGCAATCTCTGCCTGAACATGCTGATTGGCGTGGGGAAGCAGGGCCTCTGCTGCTCCTTCTGCAAGTACACGGTCCATGAGCGCTGTGTGGCCAGAGCCCCGCCCTCCTGCATCAAGACATATGTGAAGTCCAAGAAAAACACAGACGTCATGCACCACTATTGGGTCGAAGGCAATTGCCCAACCAAGTGCGATAAGTGCCACAAAACAGTGAAATGTTACCAGGGCCTGACGGGCCTGCATTGTGTTTGGTGCCAGACCACACTGCACAATAAATGTGCTTCTCATCTGAAGCCCGAGTGTGACTGTGGACCCTTGAAGGACCATATTTTGCCACCTACCACAATCTGTCCAGTTGTATTGACTATGCCCAGTGCTGGAGCCTCAGTTCCTGAGGAAAGACAGTCCACAGCTAAAAAGGAAAAGAGCAGCTCCCAGCAGCCAAATAAAGCAACAGACAAAAATAAAATGCAAAGAGCTAACTCAGTTACTATGGATGGACAAGGTTTGCAGATCACTCCTGTTCCTGGCACACATCCGCTTCTAGTTTTTGTCAACCCTAAAAGTGGTGGGAAGCAAGGAGAACGAATTTACAGAAAATTCCAGTATCTCCTAAATCCTCGTCAGGTTTACAGTCTTTCTGGAAATGGACCAATGCCAGGGTTACACTTTTTTCGCGATGTCCCTGACTTCAGAGTGTTAGCATGCGGTGGAGATGGGACTGTGGGCTGGATTTTGGATTGCATAGAGAAGGCCAATGTAGTCAAGCACCCTCCAGTTGCCATCCTGCCTCTTGGGACTGGCAATGACTTAGCAAGGTGCCTGCGGTGGGGTGGAGGTTATGAAGGGGAAAATCTTATGAAGATCCTAAAAGACATTGAAAGCAGCACAGAAATCATGCTGGACAGGTGGAAGTTTGAAGTCACACCCAACGACAAAGATGAGAAAGGAGACCCTGTGCCTTACAGCATCATCAATAACTACTTTTCCATTGGCGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGTCACACCCAACGACA
59.46
TGAAATCGTCAGGCAGCTCA
59.68
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAAAGGAGACCCTGTGCC
60.04
AAAAGGTGGGCGGTGAAATC
59.03
140
PCR template sequence:
GCTGGACAGGTGGAAGTTTGAAGTCACACCCAACGACAAAGATGAGAAAGGAGACCCTGTGCCTTACAGCATCATCAATAACTACTTTTCCATTGGCGTGACCATAGATTTTGAAGGCTTCAAGCTATTCATGAAGACCTTTCTGGAAGCTGAGCTGCCTGACGATTTCACCGCCCACCTTTTTATGTCATTCAGCAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-15b-5p(1), mmu-miR-196a-5p(1), mmu-miR-709(1), mmu-miR-128-3p(1), mmu-miR-494-3p(1), mmu-miR-207(1), mmu-miR-452-3p(1), mmu-miR-3470b(1), mmu-miR-544-5p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCATTGGCGTGACCATAGATTTTG
siRNA sets
CAAAATCTATGGTCACGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDGKB_1599_ORF_1
1.066
0.196979633
0.999999999
3168
ORF sequence:
ATGAAGACCTTTCTGGAAGCTGAGCTGCCTGACGATTTCACCGCCCACCTTTTTATGTCATTCAGCAACAAATTTCCCCATTCTAGCCCAAATGTAAAGAGTAAGCCCGCTCTTCTTTCAGGTGGTCTCAGGATGAATAAGGGTGCCATCACCCCTCCACGTTCCTCTCCAGCAAATACATGCTCCCCAGAAGTGATCCACCTCAAGGATATCGTCTGCTACCTGTCTCTTCTCGAAAGAGGAAGACCCGAGGATAAGCTCGAGTTTATGTTTCGCCTTTATGACACCGATGGGAATGGCTTCCTGGACAGCTCGGAATTAGAAAATATTATTGGTCAGATGATGCACGTGGCAGAGTACCTCGAATGGGATGTTACCGAACTTAATCCGATCCTTCATGAAATGATGGAAGAAATTGACTATGACCGGGATGGCACTGTGTCTCTGGAGGAGTGGATTCAAGGAGGAATGACAACTATCCCACTTCTAGTCCTGCTGGGCTTGGAGAATAATGTGAAGGATGATGGACAGCATGTGTGGCGACTCAAGCACTTTAACAAGCCTGCCTACTGCAATCTCTGCCTGAACATGCTGATTGGCGTGGGGAAGCAGGGCCTCTGCTGCTCCTTCTGCAAGTACACGGTCCATGAGCGCTGTGTGGCCAGAGCCCCGCCCTCCTGCATCAAGACATATGTGAAGTCCAAGAAAAACACAGACGTCATGCACCACTATTGGGTCGAAGGCAATTGCCCAACCAAGTGCGATAAGTGCCACAAAACAGTGAAATGTTACCAGGGCCTGACGGGCCTGCATTGTGTTTGGTGCCAGACCACACTGCACAATAAATGTGCTTCTCATCTGAAGCCCGAGTGTGACTGTGGACCCTTGAAGGACCATATTTTGCCACCTACCACAATCTGTCCAGTTGTATTGACTATGCCCAGTGCTGGAGCCTCAGTTCCTGAGGAAAGACAGTCCACAGCTAAAAAGGAAAAGAGCAGCTCCCAGCAGCCAAATAAAGCAACAGACAAAAATAAAATGCAAAGAGCTAACTCAGTTACTATGGATGGACAAGGTTTGCAGATCACTCCTGTTCCTGGCACACATCCGCTTCTAGTTTTTGTCAACCCTAAAAGTGGTGGGAAGCAAGGAGAACGAATTTACAGAAAATTCCAGTATCTCCTAAATCCTCGTCAGGTTTACAGTCTTTCTGGAAATGGACCAATGCCAGGGTTACACTTTTTTCGCGATGTCCCTGACTTCAGAGTGTTAGCATGCGGTGGAGATGGGACTGTGGGCTGGATTTTGGATTGCATAGAGAAGGCCAATGTAGTCAAGCACCCTCCAGTTGCCATCCTGCCTCTTGGGACTGGCAATGACTTAGCAAGGTGCCTGCGGTGGGGTGGAGGTTATGAAGGGGAAAATCTTATGAAGATCCTAAAAGACATTGAAAGCAGCACAGAAATCATGCTGGACAGGTGGAAGTTTGAAGTCACACCCAACGACAAAGATGAGAAAGGAGACCCTGTGCCTTACAGCATCATCAATAACTACTTTTCCATTGGCGTGACCATAGATTTTGAAGGCTTCAAGCTATTCATGAAGACCTTTCTGGAAGCTGAGCTGCCTGACGATTTCACCGCCCACCTTTTTATGTCATTCAGCAACAAATTTCCCCATTCTAGCCCAAATGTAAAGAGTAAGCCCGCTCTTCTTTCAGGTGGTCTCAGGATGAATAAGGGTGCCATCACCCCTCCACGTTCCTCTCCAGCAAATACATGCTCCCCAGAAGTGATCCACCTCAAGGATATCGTCTGCTACCTGTCTCTTCTCGAAAGAGGAAGACCCGAGGATAAGCTCGAGTTTATGTTTCGCCTTTATGACACCGATGGGAATGGCTTCCTGGACAGCTCGGAATTAGAAAATATTATTGGTCAGATGATGCACGTGGCAGAGTACCTCGAATGGGATGTTACCGAACTTAATCCGATCCTTCATGAAATGATGGAAGAAATTGACTATGACCGGGATGGCACTGTGTCTCTGGAGGAGTGGATTCAAGGAGGAATGACAACTATCCCACTTCTAGTCCTGCTGGGCTTGGAGAATAATGTGAAGGATGATGGACAGCATGTGTGGCGACTCAAGCACTTTAACAAGCCTGCCTACTGCAATCTCTGCCTGAACATGCTGATTGGCGTGGGGAAGCAGGGCCTCTGCTGCTCCTTCTGCAAGTACACGGTCCATGAGCGCTGTGTGGCCAGAGCCCCGCCCTCCTGCATCAAGACATATGTGAAGTCCAAGAAAAACACAGACGTCATGCACCACTATTGGGTCGAAGGCAATTGCCCAACCAAGTGCGATAAGTGCCACAAAACAGTGAAATGTTACCAGGGCCTGACGGGCCTGCATTGTGTTTGGTGCCAGACCACACTGCACAATAAATGTGCTTCTCATCTGAAGCCCGAGTGTGACTGTGGACCCTTGAAGGACCATATTTTGCCACCTACCACAATCTGTCCAGTTGTATTGACTATGCCCAGTGCTGGAGCCTCAGTTCCTGAGGAAAGACAGTCCACAGCTAAAAAGGAAAAGAGCAGCTCCCAGCAGCCAAATAAAGCAACAGACAAAAATAAAATGCAAAGAGCTAACTCAGTTACTATGGATGGACAAGGTTTGCAGATCACTCCTGTTCCTGGCACACATCCGCTTCTAGTTTTTGTCAACCCTAAAAGTGGTGGGAAGCAAGGAGAACGAATTTACAGAAAATTCCAGTATCTCCTAAATCCTCGTCAGGTTTACAGTCTTTCTGGAAATGGACCAATGCCAGGGTTACACTTTTTTCGCGATGTCCCTGACTTCAGAGTGTTAGCATGCGGTGGAGATGGGACTGTGGGCTGGATTTTGGATTGCATAGAGAAGGCCAATGTAGTCAAGCACCCTCCAGTTGCCATCCTGCCTCTTGGGACTGGCAATGACTTAGCAAGGTGCCTGCGGTGGGGTGGAGGTTATGAAGGGGAAAATCTTATGAAGATCCTAAAAGACATTGAAAGCAGCACAGAAATCATGCTGGACAGGTGGAAGTTTGAAGTCACACCCAACGACAAAGATGAGAAAGGAGACCCTGTGCCTTACAGCATCATCAATAACTACTTTTCCATTGGCGTG
Peptide sequence:
MKTFLEAELPDDFTAHLFMSFSNKFPHSSPNVKSKPALLSGGLRMNKGAITPPRSSPANTCSPEVIHLKDIVCYLSLLERGRPEDKLEFMFRLYDTDGNGFLDSSELENIIGQMMHVAEYLEWDVTELNPILHEMMEEIDYDRDGTVSLEEWIQGGMTTIPLLVLLGLENNVKDDGQHVWRLKHFNKPAYCNLCLNMLIGVGKQGLCCSFCKYTVHERCVARAPPSCIKTYVKSKKNTDVMHHYWVEGNCPTKCDKCHKTVKCYQGLTGLHCVWCQTTLHNKCASHLKPECDCGPLKDHILPPTTICPVVLTMPSAGASVPEERQSTAKKEKSSSQQPNKATDKNKMQRANSVTMDGQGLQITPVPGTHPLLVFVNPKSGGKQGERIYRKFQYLLNPRQVYSLSGNGPMPGLHFFRDVPDFRVLACGGDGTVGWILDCIEKANVVKHPPVAILPLGTGNDLARCLRWGGGYEGENLMKILKDIESSTEIMLDRWKFEVTPNDKDEKGDPVPYSIINNYFSIGVTIDFEGFKLFMKTFLEAELPDDFTAHLFMSFSNKFPHSSPNVKSKPALLSGGLRMNKGAITPPRSSPANTCSPEVIHLKDIVCYLSLLERGRPEDKLEFMFRLYDTDGNGFLDSSELENIIGQMMHVAEYLEWDVTELNPILHEMMEEIDYDRDGTVSLEEWIQGGMTTIPLLVLLGLENNVKDDGQHVWRLKHFNKPAYCNLCLNMLIGVGKQGLCCSFCKYTVHERCVARAPPSCIKTYVKSKKNTDVMHHYWVEGNCPTKCDKCHKTVKCYQGLTGLHCVWCQTTLHNKCASHLKPECDCGPLKDHILPPTTICPVVLTMPSAGASVPEERQSTAKKEKSSSQQPNKATDKNKMQRANSVTMDGQGLQITPVPGTHPLLVFVNPKSGGKQGERIYRKFQYLLNPRQVYSLSGNGPMPGLHFFRDVPDFRVLACGGDGTVGWILDCIEKANVVKHPPVAILPLGTGNDLARCLRWGGGYEGENLMKILKDIESSTEIMLDRWKFEVTPNDKDEKGDPVPYSIINNYFSIGV
IRESfinder result
IRESfinder score
0.498690363
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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