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mmu_circSrbd1_2656
Basic information of circular RNA
PanCircBase ID:
mmu_circSrbd1_2656
mm39_Chr. Position ID:
chr17|86295752|86449867|-
Gene name:
Srbd1
Transcript:
ENSMUST00000095187.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
19
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,11996,13106,15522,62761,69351,110187,110880,114518,120902,126868,131589,132325,137786,139391,141789,147839,150744,154035
Genomic length:
154115
Exon/intron sizes in nt:
185,153,177,107,83,92,108,91,158,108,104,136,97,139,118,167,372,181,80
Flanking exon/introns:
chr17:86292911-86295752|chr17:86449867-86452548
Splice length:
2656
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGCCCTCATTGCGCAAAAGAGTGAAAATACAGGCCGAGAATGCAGAACCCAAAGATGAATGCTCTTTCTTCTCTGAGTTGTCATCTGGCTCTGAAGAAGATAACAAGGAAGACAGCATTTGGGAACCTCAGAAGAAAGTTCCCAGAAATCGTAGACAGCCTGCTTCCAAGGGATCCAAACGGAAGCAGGGGCCCAGGGCGAAGAAGAGCTCCCAACAGGTGGATGACGAATCAAAAGATGTGGCTGTTAAGGAGGAGTTGAACAGCCCGGTGGCTATTGTTGATGCAGATTTGGAAGAGAAAAGCCACAAGTTGCAGACGACAAAGACTCTTAAAACTGCAGCAAAAAAGCAAAAAAAACCAGTTCCGAGGGCCAAAAAAAGGTTGAAAGTTGATGAGGAAACCAGCCAGGCCAGCCCCTTGGAGGGTGGAGGCAGTAATGTGGAGACCCCCTCAACAAGCGCCTGTGGAAATGTGTGCAAGAAGGAGGAGAGCGAGGACAGCTTCACGTTTGGGCAGTCCCCGGTAAAGAGGATCAGGACTGAGTCATGTCCTCAGGGGAGGCCGGCCAGGGTTCCCGACGGTGTCAGCGACATTAAAGAGGAGGTAGAAATGAACTGGGACGTAGTACAGGTTTTATCTGAGAGAACTAATATTGAACCTTGGGTTTGTGCCAACATCATACGCCTCTTTAATGATGACAACACAATCCCCTTCATTGTACGCTATCGAAAAGAGCTCATTAATAACCTTGATGCTGATTTCTTAAGAGAAGTTCGTCAAACCCTAGATGAGCTACGGGATGTTGCCAAGAAGGTTCATAGTAGAATCCAGAAAATTAAGAAGGAGGGGAAAATGTCGGAGTGCTTGCTGCAAGCCTTGTTGAACTGTAAAACGTTCGAGGAACTAGAGCATGTGTCTGCTCCATATAAAATGGGGAGCAAGGGCACGAAAGCCCAGAGAGCAAAACAGTTGGGGCTAGAAGGAGCAGCGTGGACCCTGCTGGAGAACCCGGGGCAGCTCAACCTGCTGTCTTACATCAAGCCTGATGTTAAAGGCCTTTCTGAGCTCAACGATATCGAAACAGGAGTACAACATATTTTAGCAGACATGATTGCTAAAGACAAAGATACGCTTGACTTTATTCGGGGCTTGTGTAAACATAGATACATTTGTATCCAGTCATCTCTTGCAAAAGTATCCTCAAAAAAAGTAAATGAGAAGGAAGTTGATAAGTTTCAGCTTTACCAGAATTTCTCCTGCAACATAAGGACCATCCACCATCACCAGATTCTGGCCATTAACCGAGGAGAGAATTTGAAGATCCTGACCGTCAAAGTCAACATTTCTGATGGAGTAAAGAACGAATTCTGTCGATGGTGTATACAGAACAGGTGGAGGCCACGTGGCTTTGCACGGCCAGAGTTGATGAAGATCTTACATAATTCACTGGATGACTCCTTTAAGCGCCTCATTGTTCCTCTCCTCTGTAGAGAGTTCAGAGCCAAACTGACATCAGATGCAGAGAAGCAATCAGTAATGATGTTTGGACAGAACCTCCGCCAGCTCCTTTTAACAAGTCCTGTGCCAGGCCGCACCCTGATGGGAGTAGATCCTGGCTACAAACATGGATGCAAACTAGCCATCATTTCTCCTACTAGTCAGATCCTTCACACGGATGTGGTTTACTTGCACTGTGGACAAGGCTTCCGAGAGGCCGAGAAGATCAAGAGGCTTTTGCTGCATTTCAACTGCAGAACAGTGGTGATCGGAAATGGAACTGCCTGCCGGGAAACTGAAGCCTACTTTGCTGACCTGATAATGAAAAATTACTTTGCACCACTGGATGTCGTTTACTGCATCGTCAGTGAAGCAGGGGCCTCCATCTACAGTGTCAGCCCCGAAGCGAACAAGGAGATGCCAGGACTGGACCCTAACTTGAGAAGTGCAGTTTCCATAGCAAGGCGTGTTCAAGATCCATTAGCTGAGCTAGTGAAATTTGACCCGAAGCACATTGGAGTTGGAATGTATCAGCATGATGTATCCCAGACATTACTCAAGGCAACACTGGACAGTGTTGTAGAAGAATGTGTCAGCTTTGTGGGAGTGGATATTAACATTTGTTCTGAGGTTTTGTTAAGGCATATTGCAGGACTCAATGCCAATAGAGCCAAAAATATTATTGAGTGGCGAGAGAAAAATGGCCCTTTCATTAACCGAGAACAGTTGAAGAAGGTGAAAGGGCTTGGTCCAAAATCCTTCCAGCAGTGTGCTGGCTTCGTCAGGATCAACCAGGATTACATCCGGACATTCTGCAGTCAACACACTGACTCTTCAGGCCAGAGCCAGGAAACTGCCATGGTCACAAATGAGAAGCTGGGCAAAAAGAAGAACAAAGCAGATGCCACCCTCATACCAAACCCACTGGACCAGACTTGCATCCATCCGGAATCCTATGACATAGCAGTCAGGTTTTTATCGTTCATTGGGGGGACAATGTGTGAGATTGGAAAGCCTGAAATGCAGCAGAAAATAAACGTGTCTCTCGGGAAAGAAGGCATAGAGGAAACTGCTGAAAGGTTACAGACAACTGTGCACACACTGCAGGTCATCATAGATGGACTGAGCCAGCCCAAAACCTTTGACATCCGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACACACTGCAGGTCATCA
60.89
CAGAGCCAGATGACAACTCAGA
59.77
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACACACTGCAGGTCATCA
60.89
TCAGAGCCAGATGACAACTCAG
59.77
157
PCR template sequence:
GGCATAGAGGAAACTGCTGAAAGGTTACAGACAACTGTGCACACACTGCAGGTCATCATAGATGGACTGAGCCAGCCCAAAACCTTTGACATCCGAACAGATGCCCTCATTGCGCAAAAGAGTGAAAATACAGGCCGAGAATGCAGAACCCAAAGATGAATGCTCTTTCTTCTCTGAGTTGTCATCTGGCTCTGAAGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
29
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(2), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-429-3p(1), mmu-miR-375-3p(1), mmu-miR-223-3p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-203-3p(1), mmu-miR-125b-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-96-5p(1), mmu-miR-721(1), mmu-miR-758-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-129-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-350-3p(1), mmu-miR-1904(1), mmu-miR-544-5p(1), mmu-miR-323-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACATCCGAACAGATGCCCTCATTGC
siRNA sets
AATGAGGGCATCTGTTCGG, CAATGAGGGCATCTGTTCG, ATGAGGGCATCTGTTCGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSRBD1_2656_ORF_1
0.9699
0.217803961
0.999999955
2715
ORF sequence:
ATGCCCTCATTGCGCAAAAGAGTGAAAATACAGGCCGAGAATGCAGAACCCAAAGATGAATGCTCTTTCTTCTCTGAGTTGTCATCTGGCTCTGAAGAAGATAACAAGGAAGACAGCATTTGGGAACCTCAGAAGAAAGTTCCCAGAAATCGTAGACAGCCTGCTTCCAAGGGATCCAAACGGAAGCAGGGGCCCAGGGCGAAGAAGAGCTCCCAACAGGTGGATGACGAATCAAAAGATGTGGCTGTTAAGGAGGAGTTGAACAGCCCGGTGGCTATTGTTGATGCAGATTTGGAAGAGAAAAGCCACAAGTTGCAGACGACAAAGACTCTTAAAACTGCAGCAAAAAAGCAAAAAAAACCAGTTCCGAGGGCCAAAAAAAGGTTGAAAGTTGATGAGGAAACCAGCCAGGCCAGCCCCTTGGAGGGTGGAGGCAGTAATGTGGAGACCCCCTCAACAAGCGCCTGTGGAAATGTGTGCAAGAAGGAGGAGAGCGAGGACAGCTTCACGTTTGGGCAGTCCCCGGTAAAGAGGATCAGGACTGAGTCATGTCCTCAGGGGAGGCCGGCCAGGGTTCCCGACGGTGTCAGCGACATTAAAGAGGAGGTAGAAATGAACTGGGACGTAGTACAGGTTTTATCTGAGAGAACTAATATTGAACCTTGGGTTTGTGCCAACATCATACGCCTCTTTAATGATGACAACACAATCCCCTTCATTGTACGCTATCGAAAAGAGCTCATTAATAACCTTGATGCTGATTTCTTAAGAGAAGTTCGTCAAACCCTAGATGAGCTACGGGATGTTGCCAAGAAGGTTCATAGTAGAATCCAGAAAATTAAGAAGGAGGGGAAAATGTCGGAGTGCTTGCTGCAAGCCTTGTTGAACTGTAAAACGTTCGAGGAACTAGAGCATGTGTCTGCTCCATATAAAATGGGGAGCAAGGGCACGAAAGCCCAGAGAGCAAAACAGTTGGGGCTAGAAGGAGCAGCGTGGACCCTGCTGGAGAACCCGGGGCAGCTCAACCTGCTGTCTTACATCAAGCCTGATGTTAAAGGCCTTTCTGAGCTCAACGATATCGAAACAGGAGTACAACATATTTTAGCAGACATGATTGCTAAAGACAAAGATACGCTTGACTTTATTCGGGGCTTGTGTAAACATAGATACATTTGTATCCAGTCATCTCTTGCAAAAGTATCCTCAAAAAAAGTAAATGAGAAGGAAGTTGATAAGTTTCAGCTTTACCAGAATTTCTCCTGCAACATAAGGACCATCCACCATCACCAGATTCTGGCCATTAACCGAGGAGAGAATTTGAAGATCCTGACCGTCAAAGTCAACATTTCTGATGGAGTAAAGAACGAATTCTGTCGATGGTGTATACAGAACAGGTGGAGGCCACGTGGCTTTGCACGGCCAGAGTTGATGAAGATCTTACATAATTCACTGGATGACTCCTTTAAGCGCCTCATTGTTCCTCTCCTCTGTAGAGAGTTCAGAGCCAAACTGACATCAGATGCAGAGAAGCAATCAGTAATGATGTTTGGACAGAACCTCCGCCAGCTCCTTTTAACAAGTCCTGTGCCAGGCCGCACCCTGATGGGAGTAGATCCTGGCTACAAACATGGATGCAAACTAGCCATCATTTCTCCTACTAGTCAGATCCTTCACACGGATGTGGTTTACTTGCACTGTGGACAAGGCTTCCGAGAGGCCGAGAAGATCAAGAGGCTTTTGCTGCATTTCAACTGCAGAACAGTGGTGATCGGAAATGGAACTGCCTGCCGGGAAACTGAAGCCTACTTTGCTGACCTGATAATGAAAAATTACTTTGCACCACTGGATGTCGTTTACTGCATCGTCAGTGAAGCAGGGGCCTCCATCTACAGTGTCAGCCCCGAAGCGAACAAGGAGATGCCAGGACTGGACCCTAACTTGAGAAGTGCAGTTTCCATAGCAAGGCGTGTTCAAGATCCATTAGCTGAGCTAGTGAAATTTGACCCGAAGCACATTGGAGTTGGAATGTATCAGCATGATGTATCCCAGACATTACTCAAGGCAACACTGGACAGTGTTGTAGAAGAATGTGTCAGCTTTGTGGGAGTGGATATTAACATTTGTTCTGAGGTTTTGTTAAGGCATATTGCAGGACTCAATGCCAATAGAGCCAAAAATATTATTGAGTGGCGAGAGAAAAATGGCCCTTTCATTAACCGAGAACAGTTGAAGAAGGTGAAAGGGCTTGGTCCAAAATCCTTCCAGCAGTGTGCTGGCTTCGTCAGGATCAACCAGGATTACATCCGGACATTCTGCAGTCAACACACTGACTCTTCAGGCCAGAGCCAGGAAACTGCCATGGTCACAAATGAGAAGCTGGGCAAAAAGAAGAACAAAGCAGATGCCACCCTCATACCAAACCCACTGGACCAGACTTGCATCCATCCGGAATCCTATGACATAGCAGTCAGGTTTTTATCGTTCATTGGGGGGACAATGTGTGAGATTGGAAAGCCTGAAATGCAGCAGAAAATAAACGTGTCTCTCGGGAAAGAAGGCATAGAGGAAACTGCTGAAAGGTTACAGACAACTGTGCACACACTGCAGGTCATCATAGATGGACTGAGCCAGCCCAAAACCTTTGACATCCGAACAGATGCCCTCATTGCGCAAAAGAGTGAAAATACAGGCCGAGAATGCAGAACCCAAAGATGA
Peptide sequence:
MPSLRKRVKIQAENAEPKDECSFFSELSSGSEEDNKEDSIWEPQKKVPRNRRQPASKGSKRKQGPRAKKSSQQVDDESKDVAVKEELNSPVAIVDADLEEKSHKLQTTKTLKTAAKKQKKPVPRAKKRLKVDEETSQASPLEGGGSNVETPSTSACGNVCKKEESEDSFTFGQSPVKRIRTESCPQGRPARVPDGVSDIKEEVEMNWDVVQVLSERTNIEPWVCANIIRLFNDDNTIPFIVRYRKELINNLDADFLREVRQTLDELRDVAKKVHSRIQKIKKEGKMSECLLQALLNCKTFEELEHVSAPYKMGSKGTKAQRAKQLGLEGAAWTLLENPGQLNLLSYIKPDVKGLSELNDIETGVQHILADMIAKDKDTLDFIRGLCKHRYICIQSSLAKVSSKKVNEKEVDKFQLYQNFSCNIRTIHHHQILAINRGENLKILTVKVNISDGVKNEFCRWCIQNRWRPRGFARPELMKILHNSLDDSFKRLIVPLLCREFRAKLTSDAEKQSVMMFGQNLRQLLLTSPVPGRTLMGVDPGYKHGCKLAIISPTSQILHTDVVYLHCGQGFREAEKIKRLLLHFNCRTVVIGNGTACRETEAYFADLIMKNYFAPLDVVYCIVSEAGASIYSVSPEANKEMPGLDPNLRSAVSIARRVQDPLAELVKFDPKHIGVGMYQHDVSQTLLKATLDSVVEECVSFVGVDINICSEVLLRHIAGLNANRAKNIIEWREKNGPFINREQLKKVKGLGPKSFQQCAGFVRINQDYIRTFCSQHTDSSGQSQETAMVTNEKLGKKKNKADATLIPNPLDQTCIHPESYDIAVRFLSFIGGTMCEIGKPEMQQKINVSLGKEGIEETAERLQTTVHTLQVIIDGLSQPKTFDIRTDALIAQKSENTGRECRTQR
IRESfinder result
IRESfinder score
0.499339191
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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