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mmu_circHectd1_1503
Basic information of circular RNA
PanCircBase ID:
mmu_circHectd1_1503
mm39_Chr. Position ID:
chr12|51819056|51837031|-
Gene name:
Hectd1
Transcript:
ENSMUST00000042052.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
24,23,22,21,20,19,18,17,16,15
Exon/intron offsets:
0,265,1553,2377,4222,10208,11908,13535,15571,17898
Genomic length:
17975
Exon/intron sizes in nt:
177,167,324,140,135,106,95,147,135,77
Flanking exon/introns:
chr12:51816148-51819056|chr12:51837031-51837134
Splice length:
1503
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTCAGAGTTTGTGACTGGCTGGACTGGCAAAAGAGGCAGAAAACTCAAATCCAAGTTGGAGAAAACAAAGCAAAAGGTACGAACTATGGCTCGAGACTTGTATGACGACCACTTTAAAGCTGTTGAAAGCATGCCTCGTGGGGTGGTAGTGACACTCAGAAATATAGCAACTCAGCTGGAGTCATCTTGGGAACTCCATACGAATAGACAATGTATCGAAGGTGAAAACACTTGGCGAGACTTAATGAAGACAGCCTTAGAAAACCTAATTGTACTGCTGAAGGATGAGAACACGATCTCACCGTATGAAATGTGTAGTAGTGGTTTAGTCCAGGCACTTCTTACTGTTCTAAACAATAGTATAGATTTGGATATGAAGCAAGATTGTAGTCAACTGGTAGAAAGAATAAATGTCTTCAAAACAGCCTTTAGTGAAAGTGAAGATGATGAGAGCAGACCAGCAGTTGCATTAATTCGAAAATTAATAGCTGTACTAGAATCAATTGAACGCCTACCTCTCCATTTGTATGACACACCAGGATCCACGTATAACCTCCAGATACTTACAAGAAGATTACGCTTTCGGTTGGAACGTGCACCTGGTGAAACTTCATTAATAGACCGGACAGGCAGGATGCTGAAGATGGAGCCCTTAGCTACAGTTGAATCTCTGGAACAGTATCTGCTGAAAATGGTGGCAAAGCAGTGGTACGACTTTGACAGATCCTCATTTGTTTTTGTTCGAAAATTAAGAGAAGGCCAAAATTTTATATTCCGGCACCAACATGACTTTGATGAGAATGGAATCATTTACTGGATTGGAACAAATGCAAAAACTGCGTATGAATGGGTAAATCCTGCAGCTTATGGACTCGTAGTCGTCACATCATCAGAAGGAAGGAATCTGCCCTATGGCCGCTTGGAGGACATACTAAGTCGAGATAATTCAGCTTTAAATTGTCACAGCAATGATGATAAAAATGCCTGGTTTGCCATAGATCTGGGTGTCTGGGTAATACCTTCAGCATACACACTTCGTCATGCTCGTGGCTATGGAAGGTCTGCACTGAGAAATTGGGTTTTCCAGGTATCCAAAGATGGACAGAACTGGACTTCTTTGTATACCCATGTTGATGACTGCAGTCTCAATGAACCAGGGTCAACTGCAACATGGCCCCTTGACCCAGCGAAGGATGAAAAGCAAGGGTGGCGGCATGTCAGGCTGAAGCAGATGGGGAAGAACGCCAGTGGACAGACGCACTACCTCTCGCTCTCCGGCTTTGAACTCTATGGCACTGTGAATGGCGTGTGCGAAGACCAACTAGGGAAAGCAGCTAAAGAAGCAGAAGCTAATCTTAGAAGGCAGAGGCGCCTGGTGCGCTCTCAGGTCCTCAAGTACATGGTTCCAGGAGCACGTGTTATCAGGGGCCTTGATTGGAAGTGGCGAGATCAGGATGGCAGCCCGCAGGGAGAAGGCACAGTCACAGGCGAGCTCCACAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGGCCTTGATTGGAAGTG
59.96
AGTCTCGAGCCATAGTTCGT
58.25
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGGGCCTTGATTGGAAGT
59.96
AGTCTCGAGCCATAGTTCGT
58.25
179
PCR template sequence:
GTTCCAGGAGCACGTGTTATCAGGGGCCTTGATTGGAAGTGGCGAGATCAGGATGGCAGCCCGCAGGGAGAAGGCACAGTCACAGGCGAGCTCCACAATGGTTCAGAGTTTGTGACTGGCTGGACTGGCAAAAGAGGCAGAAAACTCAAATCCAAGTTGGAGAAAACAAAGCAAAAGGTACGAACTATGGCTCGAGACTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-let-7e-5p(2), mmu-miR-98-5p(2), mmu-let-7a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-320-3p(1), mmu-let-7d-5p(1), mmu-miR-434-5p(1), mmu-miR-433-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-490-3p(1), mmu-miR-1904(1), mmu-miR-574-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCTCCACAATGGTTCAGAGTTTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHECTD1_1503_ORF_1
0.8002
0.115333648
0.99999998
2919
ORF sequence:
ATGGCTCGAGACTTGTATGACGACCACTTTAAAGCTGTTGAAAGCATGCCTCGTGGGGTGGTAGTGACACTCAGAAATATAGCAACTCAGCTGGAGTCATCTTGGGAACTCCATACGAATAGACAATGTATCGAAGGTGAAAACACTTGGCGAGACTTAATGAAGACAGCCTTAGAAAACCTAATTGTACTGCTGAAGGATGAGAACACGATCTCACCGTATGAAATGTGTAGTAGTGGTTTAGTCCAGGCACTTCTTACTGTTCTAAACAATAGTATAGATTTGGATATGAAGCAAGATTGTAGTCAACTGGTAGAAAGAATAAATGTCTTCAAAACAGCCTTTAGTGAAAGTGAAGATGATGAGAGCAGACCAGCAGTTGCATTAATTCGAAAATTAATAGCTGTACTAGAATCAATTGAACGCCTACCTCTCCATTTGTATGACACACCAGGATCCACGTATAACCTCCAGATACTTACAAGAAGATTACGCTTTCGGTTGGAACGTGCACCTGGTGAAACTTCATTAATAGACCGGACAGGCAGGATGCTGAAGATGGAGCCCTTAGCTACAGTTGAATCTCTGGAACAGTATCTGCTGAAAATGGTGGCAAAGCAGTGGTACGACTTTGACAGATCCTCATTTGTTTTTGTTCGAAAATTAAGAGAAGGCCAAAATTTTATATTCCGGCACCAACATGACTTTGATGAGAATGGAATCATTTACTGGATTGGAACAAATGCAAAAACTGCGTATGAATGGGTAAATCCTGCAGCTTATGGACTCGTAGTCGTCACATCATCAGAAGGAAGGAATCTGCCCTATGGCCGCTTGGAGGACATACTAAGTCGAGATAATTCAGCTTTAAATTGTCACAGCAATGATGATAAAAATGCCTGGTTTGCCATAGATCTGGGTGTCTGGGTAATACCTTCAGCATACACACTTCGTCATGCTCGTGGCTATGGAAGGTCTGCACTGAGAAATTGGGTTTTCCAGGTATCCAAAGATGGACAGAACTGGACTTCTTTGTATACCCATGTTGATGACTGCAGTCTCAATGAACCAGGGTCAACTGCAACATGGCCCCTTGACCCAGCGAAGGATGAAAAGCAAGGGTGGCGGCATGTCAGGCTGAAGCAGATGGGGAAGAACGCCAGTGGACAGACGCACTACCTCTCGCTCTCCGGCTTTGAACTCTATGGCACTGTGAATGGCGTGTGCGAAGACCAACTAGGGAAAGCAGCTAAAGAAGCAGAAGCTAATCTTAGAAGGCAGAGGCGCCTGGTGCGCTCTCAGGTCCTCAAGTACATGGTTCCAGGAGCACGTGTTATCAGGGGCCTTGATTGGAAGTGGCGAGATCAGGATGGCAGCCCGCAGGGAGAAGGCACAGTCACAGGCGAGCTCCACAATGGTTCAGAGTTTGTGACTGGCTGGACTGGCAAAAGAGGCAGAAAACTCAAATCCAAGTTGGAGAAAACAAAGCAAAAGGTACGAACTATGGCTCGAGACTTGTATGACGACCACTTTAAAGCTGTTGAAAGCATGCCTCGTGGGGTGGTAGTGACACTCAGAAATATAGCAACTCAGCTGGAGTCATCTTGGGAACTCCATACGAATAGACAATGTATCGAAGGTGAAAACACTTGGCGAGACTTAATGAAGACAGCCTTAGAAAACCTAATTGTACTGCTGAAGGATGAGAACACGATCTCACCGTATGAAATGTGTAGTAGTGGTTTAGTCCAGGCACTTCTTACTGTTCTAAACAATAGTATAGATTTGGATATGAAGCAAGATTGTAGTCAACTGGTAGAAAGAATAAATGTCTTCAAAACAGCCTTTAGTGAAAGTGAAGATGATGAGAGCAGACCAGCAGTTGCATTAATTCGAAAATTAATAGCTGTACTAGAATCAATTGAACGCCTACCTCTCCATTTGTATGACACACCAGGATCCACGTATAACCTCCAGATACTTACAAGAAGATTACGCTTTCGGTTGGAACGTGCACCTGGTGAAACTTCATTAATAGACCGGACAGGCAGGATGCTGAAGATGGAGCCCTTAGCTACAGTTGAATCTCTGGAACAGTATCTGCTGAAAATGGTGGCAAAGCAGTGGTACGACTTTGACAGATCCTCATTTGTTTTTGTTCGAAAATTAAGAGAAGGCCAAAATTTTATATTCCGGCACCAACATGACTTTGATGAGAATGGAATCATTTACTGGATTGGAACAAATGCAAAAACTGCGTATGAATGGGTAAATCCTGCAGCTTATGGACTCGTAGTCGTCACATCATCAGAAGGAAGGAATCTGCCCTATGGCCGCTTGGAGGACATACTAAGTCGAGATAATTCAGCTTTAAATTGTCACAGCAATGATGATAAAAATGCCTGGTTTGCCATAGATCTGGGTGTCTGGGTAATACCTTCAGCATACACACTTCGTCATGCTCGTGGCTATGGAAGGTCTGCACTGAGAAATTGGGTTTTCCAGGTATCCAAAGATGGACAGAACTGGACTTCTTTGTATACCCATGTTGATGACTGCAGTCTCAATGAACCAGGGTCAACTGCAACATGGCCCCTTGACCCAGCGAAGGATGAAAAGCAAGGGTGGCGGCATGTCAGGCTGAAGCAGATGGGGAAGAACGCCAGTGGACAGACGCACTACCTCTCGCTCTCCGGCTTTGAACTCTATGGCACTGTGAATGGCGTGTGCGAAGACCAACTAGGGAAAGCAGCTAAAGAAGCAGAAGCTAATCTTAGAAGGCAGAGGCGCCTGGTGCGCTCTCAGGTCCTCAAGTACATGGTTCCAGGAGCACGTGTTATCAGGGGCCTTGATTGGAAGTGGCGAGATCAGGATGGCAGCCCGCAGGGAGAAGGCACAGTCACAGGCGAGCTCCACAAT
Peptide sequence:
MARDLYDDHFKAVESMPRGVVVTLRNIATQLESSWELHTNRQCIEGENTWRDLMKTALENLIVLLKDENTISPYEMCSSGLVQALLTVLNNSIDLDMKQDCSQLVERINVFKTAFSESEDDESRPAVALIRKLIAVLESIERLPLHLYDTPGSTYNLQILTRRLRFRLERAPGETSLIDRTGRMLKMEPLATVESLEQYLLKMVAKQWYDFDRSSFVFVRKLREGQNFIFRHQHDFDENGIIYWIGTNAKTAYEWVNPAAYGLVVVTSSEGRNLPYGRLEDILSRDNSALNCHSNDDKNAWFAIDLGVWVIPSAYTLRHARGYGRSALRNWVFQVSKDGQNWTSLYTHVDDCSLNEPGSTATWPLDPAKDEKQGWRHVRLKQMGKNASGQTHYLSLSGFELYGTVNGVCEDQLGKAAKEAEANLRRQRRLVRSQVLKYMVPGARVIRGLDWKWRDQDGSPQGEGTVTGELHNGSEFVTGWTGKRGRKLKSKLEKTKQKVRTMARDLYDDHFKAVESMPRGVVVTLRNIATQLESSWELHTNRQCIEGENTWRDLMKTALENLIVLLKDENTISPYEMCSSGLVQALLTVLNNSIDLDMKQDCSQLVERINVFKTAFSESEDDESRPAVALIRKLIAVLESIERLPLHLYDTPGSTYNLQILTRRLRFRLERAPGETSLIDRTGRMLKMEPLATVESLEQYLLKMVAKQWYDFDRSSFVFVRKLREGQNFIFRHQHDFDENGIIYWIGTNAKTAYEWVNPAAYGLVVVTSSEGRNLPYGRLEDILSRDNSALNCHSNDDKNAWFAIDLGVWVIPSAYTLRHARGYGRSALRNWVFQVSKDGQNWTSLYTHVDDCSLNEPGSTATWPLDPAKDEKQGWRHVRLKQMGKNASGQTHYLSLSGFELYGTVNGVCEDQLGKAAKEAEANLRRQRRLVRSQVLKYMVPGARVIRGLDWKWRDQDGSPQGEGTVTGELHN
IRESfinder result
IRESfinder score
0.381974601
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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