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mmu_circRbm19_1764
Basic information of circular RNA
PanCircBase ID:
mmu_circRbm19_1764
mm39_Chr. Position ID:
chr5|120264238|120324403|+
Gene name:
Rbm19
Transcript:
ENSMUST00000031590.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
9,10,11,12,13,14,15,16,17,18,19,20,21,22,23
Exon/intron offsets:
0,791,2010,4536,4980,5960,6668,7587,14030,14363,15377,17203,17823,49685,60044
Genomic length:
60165
Exon/intron sizes in nt:
7,22,01,13,11,19,97,11,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:120262837-120264238|chr5:120324403-120335946
Splice length:
1764
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGTATGTCTTCGTGGACCTCAGCAGTGAAGAAGAAGTAAAGAAGGCTCTGAAGTGCAACCGTGACTACATGGGTGGACGCTATATCGAGGTGTTCAGGGAAAAGCAGGCTCCCACCGCCCGTGGTCCCCCAAAGAGCACCACGCCCTGGCAAGGCCGAACGCTCGGGGAGAATGAGGAGGAGGAAGACCTGGCCGACTCTGGGAGGCTCTTCGTACGGAACCTGTCCTACACCAGCTCTGAGGAGGACCTGGAGAAGCTTTTCTCGGCCTACGGTCCCCTGTCAGAGCTCCACTACCCCATTGACAGCCTGACCAAGAAGCCGAAGGGCTTTGCCTTCGTCACCTTCATGTTCCCTGAGCACGCCGTGAAGGCCTATGCTGAGGTGGACGGGCAGGTATTCCAGGGCAGGATGCTCCATGTCCTACCTTCTACCATCAAGAAAGAAGCCAGCCAGGAGGCCAACGCCCCAGGGTCCTCTTATAAGAAGAAGAAGGAAGCCATGGACAAAGCCAACAGTTCCAGCTCGCACAACTGGAACACGCTGTTTATGGGACCAAATGCCGTGGCTGACGCCATTGCACAGAAGTACAACGCCACCAAGAGCCAAGTGTTTGACCATGAGACCAGGGGCAGCGTGGCCGTGCGTGTGGCTCTGGGGGAGACCCAGCTGGTCCAGGAGGTCCGAAGCTTCCTTATTGACAATGGGGTCTGCCTGGACTCTTTCAGCCAGGCTGCAGCGGAGCGAAGTAAGACTGTGATCCTGGCTAAGAACCTCCCGGCAGGTACTCTGGCGGCTGAGATCCAGGAGACCTTCAGCCGCTTCGGCAGCCTGGGTCGCGTGCTCCTGCCTGAAGGTGGCATCACGGCCATCGTAGAGTTCCTAGAGCCGCTGGAGGCCCGCAAGGCTTTCAGGCACCTGGCCTATTCTAAGTTCCACCATGTCCCCCTGTACCTGGAGTGGGCTCCAATTGGTGTCTTTGGCGCAGCCCCCCAGAAGAAAGATTCCCAGCATGAGCAGCCTGCAGAGAAAGCCGAGGTGGAGCAGGAGACTGTACTAGACCCAGAAGGTGAAAAGGCTTCGGTAGAAGGAGCAGAGGCCTCCACAGGCAAAATGGAAGAGGAGGAGGAAGAGGAGGAGGAGGAGGAGGAAGAGAGTATCCCAGGATGCACTTTGTTCATTAAGAACCTCAACTTCAGCACCACAGAGGAGACACTGAAGGGAGTGTTTTCCAAAGTGGGAGCTATAAAGAGCTGCACCATCTCCAAGAAGAAGAATAAAGCAGGAGTGCTCCTCTCAATGGGGTTTGGGTTTGTGGAATACAAGAAGCCAGAACAGGCCCAGAAAGCCCTCAAGCAGCTCCAGGGTCACACTGTGGACGGCCATAAGCTGGAAGTACGGATCTCTGAACGGGCCACTAAGCCTGCCTTGACATCAACTCGGAAGAAGCAGGTCCCCAAGAAGCAGACGACCTCCAAGATCCTGGTGCGGAATATCCCCTTCCAGGCCAACCAGAGGGAGATCCGGGAGCTTTTCAGCACCTTTGGGGAACTGAAGACAGTGCGCCTGCCGAAGAAGATGACAGGGACAGGTGCCCACCGCGGTTTCGGCTTTGTGGACTTCATCACCAAGCAGGATGCGAAGAAAGCCTTCAATGCGCTGTGTCATAGCACTCACTTGTACGGCCGCAGGCTGGTTCTGGAATGGGCAGACTCAGAGGTGACCGTGCAGACCCTACGGAGGAAGACGGCCAGGCACTTCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTCTGGAATGGGCAGAC
59.96
GTCCACCCATGTAGTCACGG
60.11
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAATGGGCAGACTCAGAGG
59.82
GTCCACCCATGTAGTCACGG
60.11
143
PCR template sequence:
CATAGCACTCACTTGTACGGCCGCAGGCTGGTTCTGGAATGGGCAGACTCAGAGGTGACCGTGCAGACCCTACGGAGGAAGACGGCCAGGCACTTCCAAGGGTATGTCTTCGTGGACCTCAGCAGTGAAGAAGAAGTAAAGAAGGCTCTGAAGTGCAACCGTGACTACATGGGTGGACGCTATATCGAGGTGTTCAGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-135a-5p(1), mmu-miR-138-5p(1), mmu-miR-207(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGCACTTCCAAGGGTATGTCTTCGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBM19_1764_ORF_1
1.2684
0.515270198
1
3459
ORF sequence:
ATGGGTGGACGCTATATCGAGGTGTTCAGGGAAAAGCAGGCTCCCACCGCCCGTGGTCCCCCAAAGAGCACCACGCCCTGGCAAGGCCGAACGCTCGGGGAGAATGAGGAGGAGGAAGACCTGGCCGACTCTGGGAGGCTCTTCGTACGGAACCTGTCCTACACCAGCTCTGAGGAGGACCTGGAGAAGCTTTTCTCGGCCTACGGTCCCCTGTCAGAGCTCCACTACCCCATTGACAGCCTGACCAAGAAGCCGAAGGGCTTTGCCTTCGTCACCTTCATGTTCCCTGAGCACGCCGTGAAGGCCTATGCTGAGGTGGACGGGCAGGTATTCCAGGGCAGGATGCTCCATGTCCTACCTTCTACCATCAAGAAAGAAGCCAGCCAGGAGGCCAACGCCCCAGGGTCCTCTTATAAGAAGAAGAAGGAAGCCATGGACAAAGCCAACAGTTCCAGCTCGCACAACTGGAACACGCTGTTTATGGGACCAAATGCCGTGGCTGACGCCATTGCACAGAAGTACAACGCCACCAAGAGCCAAGTGTTTGACCATGAGACCAGGGGCAGCGTGGCCGTGCGTGTGGCTCTGGGGGAGACCCAGCTGGTCCAGGAGGTCCGAAGCTTCCTTATTGACAATGGGGTCTGCCTGGACTCTTTCAGCCAGGCTGCAGCGGAGCGAAGTAAGACTGTGATCCTGGCTAAGAACCTCCCGGCAGGTACTCTGGCGGCTGAGATCCAGGAGACCTTCAGCCGCTTCGGCAGCCTGGGTCGCGTGCTCCTGCCTGAAGGTGGCATCACGGCCATCGTAGAGTTCCTAGAGCCGCTGGAGGCCCGCAAGGCTTTCAGGCACCTGGCCTATTCTAAGTTCCACCATGTCCCCCTGTACCTGGAGTGGGCTCCAATTGGTGTCTTTGGCGCAGCCCCCCAGAAGAAAGATTCCCAGCATGAGCAGCCTGCAGAGAAAGCCGAGGTGGAGCAGGAGACTGTACTAGACCCAGAAGGTGAAAAGGCTTCGGTAGAAGGAGCAGAGGCCTCCACAGGCAAAATGGAAGAGGAGGAGGAAGAGGAGGAGGAGGAGGAGGAAGAGAGTATCCCAGGATGCACTTTGTTCATTAAGAACCTCAACTTCAGCACCACAGAGGAGACACTGAAGGGAGTGTTTTCCAAAGTGGGAGCTATAAAGAGCTGCACCATCTCCAAGAAGAAGAATAAAGCAGGAGTGCTCCTCTCAATGGGGTTTGGGTTTGTGGAATACAAGAAGCCAGAACAGGCCCAGAAAGCCCTCAAGCAGCTCCAGGGTCACACTGTGGACGGCCATAAGCTGGAAGTACGGATCTCTGAACGGGCCACTAAGCCTGCCTTGACATCAACTCGGAAGAAGCAGGTCCCCAAGAAGCAGACGACCTCCAAGATCCTGGTGCGGAATATCCCCTTCCAGGCCAACCAGAGGGAGATCCGGGAGCTTTTCAGCACCTTTGGGGAACTGAAGACAGTGCGCCTGCCGAAGAAGATGACAGGGACAGGTGCCCACCGCGGTTTCGGCTTTGTGGACTTCATCACCAAGCAGGATGCGAAGAAAGCCTTCAATGCGCTGTGTCATAGCACTCACTTGTACGGCCGCAGGCTGGTTCTGGAATGGGCAGACTCAGAGGTGACCGTGCAGACCCTACGGAGGAAGACGGCCAGGCACTTCCAAGGGTATGTCTTCGTGGACCTCAGCAGTGAAGAAGAAGTAAAGAAGGCTCTGAAGTGCAACCGTGACTACATGGGTGGACGCTATATCGAGGTGTTCAGGGAAAAGCAGGCTCCCACCGCCCGTGGTCCCCCAAAGAGCACCACGCCCTGGCAAGGCCGAACGCTCGGGGAGAATGAGGAGGAGGAAGACCTGGCCGACTCTGGGAGGCTCTTCGTACGGAACCTGTCCTACACCAGCTCTGAGGAGGACCTGGAGAAGCTTTTCTCGGCCTACGGTCCCCTGTCAGAGCTCCACTACCCCATTGACAGCCTGACCAAGAAGCCGAAGGGCTTTGCCTTCGTCACCTTCATGTTCCCTGAGCACGCCGTGAAGGCCTATGCTGAGGTGGACGGGCAGGTATTCCAGGGCAGGATGCTCCATGTCCTACCTTCTACCATCAAGAAAGAAGCCAGCCAGGAGGCCAACGCCCCAGGGTCCTCTTATAAGAAGAAGAAGGAAGCCATGGACAAAGCCAACAGTTCCAGCTCGCACAACTGGAACACGCTGTTTATGGGACCAAATGCCGTGGCTGACGCCATTGCACAGAAGTACAACGCCACCAAGAGCCAAGTGTTTGACCATGAGACCAGGGGCAGCGTGGCCGTGCGTGTGGCTCTGGGGGAGACCCAGCTGGTCCAGGAGGTCCGAAGCTTCCTTATTGACAATGGGGTCTGCCTGGACTCTTTCAGCCAGGCTGCAGCGGAGCGAAGTAAGACTGTGATCCTGGCTAAGAACCTCCCGGCAGGTACTCTGGCGGCTGAGATCCAGGAGACCTTCAGCCGCTTCGGCAGCCTGGGTCGCGTGCTCCTGCCTGAAGGTGGCATCACGGCCATCGTAGAGTTCCTAGAGCCGCTGGAGGCCCGCAAGGCTTTCAGGCACCTGGCCTATTCTAAGTTCCACCATGTCCCCCTGTACCTGGAGTGGGCTCCAATTGGTGTCTTTGGCGCAGCCCCCCAGAAGAAAGATTCCCAGCATGAGCAGCCTGCAGAGAAAGCCGAGGTGGAGCAGGAGACTGTACTAGACCCAGAAGGTGAAAAGGCTTCGGTAGAAGGAGCAGAGGCCTCCACAGGCAAAATGGAAGAGGAGGAGGAAGAGGAGGAGGAGGAGGAGGAAGAGAGTATCCCAGGATGCACTTTGTTCATTAAGAACCTCAACTTCAGCACCACAGAGGAGACACTGAAGGGAGTGTTTTCCAAAGTGGGAGCTATAAAGAGCTGCACCATCTCCAAGAAGAAGAATAAAGCAGGAGTGCTCCTCTCAATGGGGTTTGGGTTTGTGGAATACAAGAAGCCAGAACAGGCCCAGAAAGCCCTCAAGCAGCTCCAGGGTCACACTGTGGACGGCCATAAGCTGGAAGTACGGATCTCTGAACGGGCCACTAAGCCTGCCTTGACATCAACTCGGAAGAAGCAGGTCCCCAAGAAGCAGACGACCTCCAAGATCCTGGTGCGGAATATCCCCTTCCAGGCCAACCAGAGGGAGATCCGGGAGCTTTTCAGCACCTTTGGGGAACTGAAGACAGTGCGCCTGCCGAAGAAGATGACAGGGACAGGTGCCCACCGCGGTTTCGGCTTTGTGGACTTCATCACCAAGCAGGATGCGAAGAAAGCCTTCAATGCGCTGTGTCATAGCACTCACTTGTACGGCCGCAGGCTGGTTCTGGAATGGGCAGACTCAGAGGTGACCGTGCAGACCCTACGGAGGAAGACGGCCAGGCACTTCCAA
Peptide sequence:
MGGRYIEVFREKQAPTARGPPKSTTPWQGRTLGENEEEEDLADSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIKKEASQEANAPGSSYKKKKEAMDKANSSSSHNWNTLFMGPNAVADAIAQKYNATKSQVFDHETRGSVAVRVALGETQLVQEVRSFLIDNGVCLDSFSQAAAERSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVFGAAPQKKDSQHEQPAEKAEVEQETVLDPEGEKASVEGAEASTGKMEEEEEEEEEEEEESIPGCTLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISERATKPALTSTRKKQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWADSEVTVQTLRRKTARHFQGYVFVDLSSEEEVKKALKCNRDYMGGRYIEVFREKQAPTARGPPKSTTPWQGRTLGENEEEEDLADSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTIKKEASQEANAPGSSYKKKKEAMDKANSSSSHNWNTLFMGPNAVADAIAQKYNATKSQVFDHETRGSVAVRVALGETQLVQEVRSFLIDNGVCLDSFSQAAAERSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVFGAAPQKKDSQHEQPAEKAEVEQETVLDPEGEKASVEGAEASTGKMEEEEEEEEEEEEESIPGCTLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISERATKPALTSTRKKQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWADSEVTVQTLRRKTARHFQ
IRESfinder result
IRESfinder score
0.301695912
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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