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mmu_circVps13b_2100
Basic information of circular RNA
PanCircBase ID:
mmu_circVps13b_2100
mm39_Chr. Position ID:
chr15|35422453|35472210|+
Gene name:
Vps13b
Transcript:
ENSMUST00000048646.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
5,6,7,8,9,10,11,12,13,14,15,16,17
Exon/intron offsets:
0,808,7802,16405,23262,23730,24315,25377,26222,29790,32649,34307,49575
Genomic length:
49757
Exon/intron sizes in nt:
168,182,175,266,96,123,138,88,192,170,195,125,182
Flanking exon/introns:
chr15:35417777-35422453|chr15:35472210-35533441
Splice length:
2100
Other database IDs:
CIRCpedia: MMU_CIRCpedia_17722, circAtlas: mmu-Vps13b_0066
CIRCpedia: HSA_CIRCpedia_363123
Human Ortholog IDs:
Mature spliced Sequence:
GATATGTGCAGAGTCTGATTAGACGAGTTGTAAATAATGTAAACATTGTTATAAATAATCTCATACTAAAATATGTTGAAGATGACATTGTTCTTTCTGTCAACATCACTTCTGCTGAATGCTATACCGTGGGTGAGTTATGGGATCGTGCATTCATGGATATTTCTGCAACTGATCTGGTGCTGAGGAAGGCTATCAATTTTTCTGACTGTACAGTTTGTCTCGATAAACGAAATGCTAGTGGCAAAATTGAATTTTACCAGGATCCTTTATTGTACAAATGTTCTTTTAGAACTCGCCTGCATTTTACATATGATAACCTAAATTCCAAGATGCCATCTGTTATTAAAATCCATACCTTGGTAGAGAGTCTGAAGCTTTCTATCACAGACCAGCAGCTACCTATGTTTATCCGTATAATGCAGCTTGGGATTGCTCTGTATTATGGAGAAATAGGCAACTTTAAAGATGGTGAAACAGAAGACCCGCCCTGTCTCAGTAAAGATACACTAGCAAACCTTACAGGTACTGAGGAGGAAAGTAGAATAGATATGCAGTATCCTGCTCCATACAAAGGCCAAGAGTTATATTCACAGGACTATGAGGAGCCTCAGGGATGGGTATCCTGGGCCTGGTCATTTGTTCCTGCAATTGTGAGTTATGATGATGGTGAGGAAGACGACCTTGGGACTGACCCTGCATCAATCATGCATCAACAGAAAGCTCAAACGCTGAAGGATCCCATTGTTTCTGTAGGCTTTTATTGCACAAAGGCGACTGTGACTTTTAAACTCACTGAAATGCAAGCTGAAAATAGCTATTATAGCCCACAGAAAGTAAAATCTAAGGAAGTTTTGTGTTGGGAACAAGAAGGAACTACAATTGAGGCTCTTATGATGGGAGAACCTTTCTTTGATTGTCAGATTGGATTTGTAGGTTGCAGAGCCATGTGTCTGAAAGGAATTCTGGGTGTTAAAGATTTTGAGGAACATATGAATAGGAGTGAAACTGAAGCCTGCTTCTTCATTTGTGGTGAAAATTTGAGTACAAAAGGTTTGACATACCTTACAAATTCATTGTTTGATTACCGGAGTCCAGAAAACAATGGTACCCGTGCAGAGTTTATCTTGGATGCAGCTCACCATAAGGAGACACACACTGACATAGCTGGCATACAGAGGTTTGGTGCGTTTTATATGGATTACCTGTATACAGTGGAGCACAGCAGTGGCAAAGGTCCAACAAGTCAACAAGACTTTCCTTCAGGGAAAAATGAGGATTTGGGAATAGTCCAAGAAAAGTCTACCAAGAGTCTTGTTATCGGGCCTCTAGATTGCCGTCTGGACAGCAGTGCGGTGCATCGGGTTTTGAAGATGATTGTTTGTGCTCTGGAACATGAATATGAACCATATAGCAGGCTAAAACCAGAAAGTAAGGATGAAAAGGAAACAGTACTGGATCCCGAGGAAGTGTCTTCTTTGGAGGAATATATCCCTACTCGGCATACAAGTGTTACTTTGCTTAAGTGCACTTGCACAGTTTTTATGGCAGAATTCAATTTACTTGATTGTTTGCTTCCTGTCATCATGGGAGGAAAGAACTCGAGTAACGTCACGAATGCCACAAACTTCCAGTCACTTCGGCCTTTGCCATCCATTCAGATATTGGTGGATAAAATTAATTTGGAACATTCTGTCCCAATGTATGCTGAACAGTTGGTCCATGTAGTCAGCAGCCTTAATCAACCTTCTGATAATCTTCTTCATTATTGTTATGTCCACTGCTACCTTAAGGTGTTTGGTTTTCAGGCCGGACTGACTTGCTTGGATCATAGTGGCTCTTACTGCTTACCTGCACCAATTATCCCCTCTTTCAGCACAGCCCTTTATGGGAAGCTTCTGAAACTCCCTGCTCTCTGGACCAAAAGATCTCAGACTGTTGTAACTGAGGGTATTTTTGAGCTCCCAAATCTCACAATTCAAGCTACAAGAGCACAGACACTTTTGTTGCAAGCAATATATCAGAGTTGGTCTCATATTGGAAATGTCAGCTCTTCAACAGTAAATGAAGCTTTGATGAATGAAGTCTTCCCAATGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAAATGTCAGCTCTTCAACAG
59.18
ACAGAAAGAACAATGTCATCTTCAACA
59.93
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAATGTCAGCTCTTCAACAGT
59.18
ACAGAAAGAACAATGTCATCTTCAACA
59.93
161
PCR template sequence:
CTTTTGTTGCAAGCAATATATCAGAGTTGGTCTCATATTGGAAATGTCAGCTCTTCAACAGTAAATGAAGCTTTGATGAATGAAGTCTTCCCAATGACAGGATATGTGCAGAGTCTGATTAGACGAGTTGTAAATAATGTAAACATTGTTATAAATAATCTCATACTAAAATATGTTGAAGATGACATTGTTCTTTCTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-670-5p(2), mmu-miR-7a-1-3p(2), mmu-miR-137-3p(1), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-132-3p(1), mmu-miR-125b-5p(1), mmu-miR-351-5p(1), mmu-miR-26b-5p(1), mmu-miR-125a-5p(1), mmu-miR-383-5p(1), mmu-miR-224-5p(1), mmu-miR-410-3p(1), mmu-miR-369-3p(1), mmu-miR-335-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCCAATGACAGGATATGTGCAGAG
siRNA sets
GCACATATCCTGTCATTGG, CACATATCCTGTCATTGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCVPS13B_2100_ORF_1
0.9866
0.015304113
1
4044
ORF sequence:
ATGGATATTTCTGCAACTGATCTGGTGCTGAGGAAGGCTATCAATTTTTCTGACTGTACAGTTTGTCTCGATAAACGAAATGCTAGTGGCAAAATTGAATTTTACCAGGATCCTTTATTGTACAAATGTTCTTTTAGAACTCGCCTGCATTTTACATATGATAACCTAAATTCCAAGATGCCATCTGTTATTAAAATCCATACCTTGGTAGAGAGTCTGAAGCTTTCTATCACAGACCAGCAGCTACCTATGTTTATCCGTATAATGCAGCTTGGGATTGCTCTGTATTATGGAGAAATAGGCAACTTTAAAGATGGTGAAACAGAAGACCCGCCCTGTCTCAGTAAAGATACACTAGCAAACCTTACAGGTACTGAGGAGGAAAGTAGAATAGATATGCAGTATCCTGCTCCATACAAAGGCCAAGAGTTATATTCACAGGACTATGAGGAGCCTCAGGGATGGGTATCCTGGGCCTGGTCATTTGTTCCTGCAATTGTGAGTTATGATGATGGTGAGGAAGACGACCTTGGGACTGACCCTGCATCAATCATGCATCAACAGAAAGCTCAAACGCTGAAGGATCCCATTGTTTCTGTAGGCTTTTATTGCACAAAGGCGACTGTGACTTTTAAACTCACTGAAATGCAAGCTGAAAATAGCTATTATAGCCCACAGAAAGTAAAATCTAAGGAAGTTTTGTGTTGGGAACAAGAAGGAACTACAATTGAGGCTCTTATGATGGGAGAACCTTTCTTTGATTGTCAGATTGGATTTGTAGGTTGCAGAGCCATGTGTCTGAAAGGAATTCTGGGTGTTAAAGATTTTGAGGAACATATGAATAGGAGTGAAACTGAAGCCTGCTTCTTCATTTGTGGTGAAAATTTGAGTACAAAAGGTTTGACATACCTTACAAATTCATTGTTTGATTACCGGAGTCCAGAAAACAATGGTACCCGTGCAGAGTTTATCTTGGATGCAGCTCACCATAAGGAGACACACACTGACATAGCTGGCATACAGAGGTTTGGTGCGTTTTATATGGATTACCTGTATACAGTGGAGCACAGCAGTGGCAAAGGTCCAACAAGTCAACAAGACTTTCCTTCAGGGAAAAATGAGGATTTGGGAATAGTCCAAGAAAAGTCTACCAAGAGTCTTGTTATCGGGCCTCTAGATTGCCGTCTGGACAGCAGTGCGGTGCATCGGGTTTTGAAGATGATTGTTTGTGCTCTGGAACATGAATATGAACCATATAGCAGGCTAAAACCAGAAAGTAAGGATGAAAAGGAAACAGTACTGGATCCCGAGGAAGTGTCTTCTTTGGAGGAATATATCCCTACTCGGCATACAAGTGTTACTTTGCTTAAGTGCACTTGCACAGTTTTTATGGCAGAATTCAATTTACTTGATTGTTTGCTTCCTGTCATCATGGGAGGAAAGAACTCGAGTAACGTCACGAATGCCACAAACTTCCAGTCACTTCGGCCTTTGCCATCCATTCAGATATTGGTGGATAAAATTAATTTGGAACATTCTGTCCCAATGTATGCTGAACAGTTGGTCCATGTAGTCAGCAGCCTTAATCAACCTTCTGATAATCTTCTTCATTATTGTTATGTCCACTGCTACCTTAAGGTGTTTGGTTTTCAGGCCGGACTGACTTGCTTGGATCATAGTGGCTCTTACTGCTTACCTGCACCAATTATCCCCTCTTTCAGCACAGCCCTTTATGGGAAGCTTCTGAAACTCCCTGCTCTCTGGACCAAAAGATCTCAGACTGTTGTAACTGAGGGTATTTTTGAGCTCCCAAATCTCACAATTCAAGCTACAAGAGCACAGACACTTTTGTTGCAAGCAATATATCAGAGTTGGTCTCATATTGGAAATGTCAGCTCTTCAACAGTAAATGAAGCTTTGATGAATGAAGTCTTCCCAATGACAGGATATGTGCAGAGTCTGATTAGACGAGTTGTAAATAATGTAAACATTGTTATAAATAATCTCATACTAAAATATGTTGAAGATGACATTGTTCTTTCTGTCAACATCACTTCTGCTGAATGCTATACCGTGGGTGAGTTATGGGATCGTGCATTCATGGATATTTCTGCAACTGATCTGGTGCTGAGGAAGGCTATCAATTTTTCTGACTGTACAGTTTGTCTCGATAAACGAAATGCTAGTGGCAAAATTGAATTTTACCAGGATCCTTTATTGTACAAATGTTCTTTTAGAACTCGCCTGCATTTTACATATGATAACCTAAATTCCAAGATGCCATCTGTTATTAAAATCCATACCTTGGTAGAGAGTCTGAAGCTTTCTATCACAGACCAGCAGCTACCTATGTTTATCCGTATAATGCAGCTTGGGATTGCTCTGTATTATGGAGAAATAGGCAACTTTAAAGATGGTGAAACAGAAGACCCGCCCTGTCTCAGTAAAGATACACTAGCAAACCTTACAGGTACTGAGGAGGAAAGTAGAATAGATATGCAGTATCCTGCTCCATACAAAGGCCAAGAGTTATATTCACAGGACTATGAGGAGCCTCAGGGATGGGTATCCTGGGCCTGGTCATTTGTTCCTGCAATTGTGAGTTATGATGATGGTGAGGAAGACGACCTTGGGACTGACCCTGCATCAATCATGCATCAACAGAAAGCTCAAACGCTGAAGGATCCCATTGTTTCTGTAGGCTTTTATTGCACAAAGGCGACTGTGACTTTTAAACTCACTGAAATGCAAGCTGAAAATAGCTATTATAGCCCACAGAAAGTAAAATCTAAGGAAGTTTTGTGTTGGGAACAAGAAGGAACTACAATTGAGGCTCTTATGATGGGAGAACCTTTCTTTGATTGTCAGATTGGATTTGTAGGTTGCAGAGCCATGTGTCTGAAAGGAATTCTGGGTGTTAAAGATTTTGAGGAACATATGAATAGGAGTGAAACTGAAGCCTGCTTCTTCATTTGTGGTGAAAATTTGAGTACAAAAGGTTTGACATACCTTACAAATTCATTGTTTGATTACCGGAGTCCAGAAAACAATGGTACCCGTGCAGAGTTTATCTTGGATGCAGCTCACCATAAGGAGACACACACTGACATAGCTGGCATACAGAGGTTTGGTGCGTTTTATATGGATTACCTGTATACAGTGGAGCACAGCAGTGGCAAAGGTCCAACAAGTCAACAAGACTTTCCTTCAGGGAAAAATGAGGATTTGGGAATAGTCCAAGAAAAGTCTACCAAGAGTCTTGTTATCGGGCCTCTAGATTGCCGTCTGGACAGCAGTGCGGTGCATCGGGTTTTGAAGATGATTGTTTGTGCTCTGGAACATGAATATGAACCATATAGCAGGCTAAAACCAGAAAGTAAGGATGAAAAGGAAACAGTACTGGATCCCGAGGAAGTGTCTTCTTTGGAGGAATATATCCCTACTCGGCATACAAGTGTTACTTTGCTTAAGTGCACTTGCACAGTTTTTATGGCAGAATTCAATTTACTTGATTGTTTGCTTCCTGTCATCATGGGAGGAAAGAACTCGAGTAACGTCACGAATGCCACAAACTTCCAGTCACTTCGGCCTTTGCCATCCATTCAGATATTGGTGGATAAAATTAATTTGGAACATTCTGTCCCAATGTATGCTGAACAGTTGGTCCATGTAGTCAGCAGCCTTAATCAACCTTCTGATAATCTTCTTCATTATTGTTATGTCCACTGCTACCTTAAGGTGTTTGGTTTTCAGGCCGGACTGACTTGCTTGGATCATAGTGGCTCTTACTGCTTACCTGCACCAATTATCCCCTCTTTCAGCACAGCCCTTTATGGGAAGCTTCTGAAACTCCCTGCTCTCTGGACCAAAAGATCTCAGACTGTTGTAACTGAGGGTATTTTTGAGCTCCCAAATCTCACAATTCAAGCTACAAGAGCACAGACACTTTTGTTGCAAGCAATATATCAGAGTTGGTCTCATATTGGAAATGTCAGCTCTTCAACAGTAAATGAAGCTTTGATGAATGAAGTCTTCCCAATGACA
Peptide sequence:
MDISATDLVLRKAINFSDCTVCLDKRNASGKIEFYQDPLLYKCSFRTRLHFTYDNLNSKMPSVIKIHTLVESLKLSITDQQLPMFIRIMQLGIALYYGEIGNFKDGETEDPPCLSKDTLANLTGTEEESRIDMQYPAPYKGQELYSQDYEEPQGWVSWAWSFVPAIVSYDDGEEDDLGTDPASIMHQQKAQTLKDPIVSVGFYCTKATVTFKLTEMQAENSYYSPQKVKSKEVLCWEQEGTTIEALMMGEPFFDCQIGFVGCRAMCLKGILGVKDFEEHMNRSETEACFFICGENLSTKGLTYLTNSLFDYRSPENNGTRAEFILDAAHHKETHTDIAGIQRFGAFYMDYLYTVEHSSGKGPTSQQDFPSGKNEDLGIVQEKSTKSLVIGPLDCRLDSSAVHRVLKMIVCALEHEYEPYSRLKPESKDEKETVLDPEEVSSLEEYIPTRHTSVTLLKCTCTVFMAEFNLLDCLLPVIMGGKNSSNVTNATNFQSLRPLPSIQILVDKINLEHSVPMYAEQLVHVVSSLNQPSDNLLHYCYVHCYLKVFGFQAGLTCLDHSGSYCLPAPIIPSFSTALYGKLLKLPALWTKRSQTVVTEGIFELPNLTIQATRAQTLLLQAIYQSWSHIGNVSSSTVNEALMNEVFPMTGYVQSLIRRVVNNVNIVINNLILKYVEDDIVLSVNITSAECYTVGELWDRAFMDISATDLVLRKAINFSDCTVCLDKRNASGKIEFYQDPLLYKCSFRTRLHFTYDNLNSKMPSVIKIHTLVESLKLSITDQQLPMFIRIMQLGIALYYGEIGNFKDGETEDPPCLSKDTLANLTGTEEESRIDMQYPAPYKGQELYSQDYEEPQGWVSWAWSFVPAIVSYDDGEEDDLGTDPASIMHQQKAQTLKDPIVSVGFYCTKATVTFKLTEMQAENSYYSPQKVKSKEVLCWEQEGTTIEALMMGEPFFDCQIGFVGCRAMCLKGILGVKDFEEHMNRSETEACFFICGENLSTKGLTYLTNSLFDYRSPENNGTRAEFILDAAHHKETHTDIAGIQRFGAFYMDYLYTVEHSSGKGPTSQQDFPSGKNEDLGIVQEKSTKSLVIGPLDCRLDSSAVHRVLKMIVCALEHEYEPYSRLKPESKDEKETVLDPEEVSSLEEYIPTRHTSVTLLKCTCTVFMAEFNLLDCLLPVIMGGKNSSNVTNATNFQSLRPLPSIQILVDKINLEHSVPMYAEQLVHVVSSLNQPSDNLLHYCYVHCYLKVFGFQAGLTCLDHSGSYCLPAPIIPSFSTALYGKLLKLPALWTKRSQTVVTEGIFELPNLTIQATRAQTLLLQAIYQSWSHIGNVSSSTVNEALMNEVFPMT
IRESfinder result
IRESfinder score
0.733398937
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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