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mmu_circRobo1_2538
Basic information of circular RNA
PanCircBase ID:
mmu_circRobo1_2538
mm39_Chr. Position ID:
chr16|72701517|72798961|+
Gene name:
Robo1
Transcript:
ENSMUST00000232205.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
18
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20
Exon/intron offsets:
0,28583,29044,31029,55451,57524,65537,67350,67578,67841,73056,73930,75215,79079,84969,89037,90487,97289
Genomic length:
97444
Exon/intron sizes in nt:
15,81,21,13,91,28,12,50,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr16:72539340-72701517|chr16:72798961-72801297
Splice length:
2538
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_138540
Human Ortholog IDs:
Mature spliced Sequence:
TACTACGGGATGACTTCAGACAAAACCCTTCAGATGTCATGGTGGCAGTAGGCGAACCTGCAGTCATGGAATGCCAGCCTCCACGGGGCCATCCAGAGCCCACCATCTCCTGGAAAAAGGATGGCTCACCCCTGGATGATAAAGATGAAAGAATCACTATACGAGGAGGAAAACTCATGATCACTTATACGCGTAAAAGCGATGCTGGCAAGTATGTTTGCGTTGGCACCAACATGGTGGGGGAACGGGAGAGTGAAGTCGCAGAGCTAACCGTTTTAGAGAGACCATCGTTTGTGAAGAGACCCAGTAATTTGGCAGTGACTGTGGATGACAGTGCAGAATTTAAATGTGAGGCCCGAGGAGACCCTGTGCCTACAGTTCGATGGAGGAAAGATGACGGAGAGCTGCCCAAATCCAGATATGAAATCCGAGATGATCATACTTTGAAAATTCGGAAGGTGACTGCTGGCGACATGGGATCATACACTTGTGTGGCAGAAAATATGGTCGGGAAAGCTGAAGCTTCCGCTACTTTGACAGTTCAAGAGCCGCCACATTTCGTTGTAAAACCTCGGGACCAGGTGGTTGCCTTGGGAAGAACTGTGACGTTTCAGTGCGAAGCAACTGGAAATCCTCAACCAGCTATCTTTTGGAGGAGAGAGGGGAGTCAGAATCTACTTTTCTCCTACCAGCCTCCACAGTCCTCTAGCCGATTTTCAGTTTCGCAGACAGGAGACCTCACCATTACGAACGTCCAGCGGTCTGATGTCGGCTACTACATCTGTCAGACTTTAAATGTTGCTGGAAGTATCATCACAAAGGCCTATTTGGAAGTTACTGATGTGATTGCAGACCGGCCTCCCCCAGTCATTCGGCAAGGTCCTGTGAATCAGACTGTAGCAGTGGATGGCACTTTAATCCTCAGCTGTGTGGCCACAGGCAGTCCAGCACCCACAATTCTGTGGAGGAAGGATGGAGTCCTTGTTTCAACCCAAGATTCTCGGATCAAACAGCTGGAGAGTGGCGTGCTGCAGATCCGCTACGCTAAGCTGGGTGACACGGGTCGGTACACCTGCACCGCATCGACCCCCAGCGGTGAGGCCACGTGGAGCGCTTACATCGAAGTCCAGGAATTTGGGGTTCCAGTTCAACCCCCAAGACCCACCGACCCCAACTTAATCCCCAGCGCCCCCTCAAAGCCCGAAGTTACAGATGTCAGCAAAAACACGGTCACTTTATCGTGGCAGCCAAACTTGAACTCAGGAGCAACCCCAACATCTTATATTATAGAAGCCTTCAGCCATGCATCTGGTAGCAGCTGGCAGACGGCGGCAGAAAATGTGAAAACAGAAACATTTGCCATCAAAGGACTCAAACCTAACGCCATTTACCTTTTCCTGGTGAGGGCAGCAAATGCCTATGGAATTAGTGATCCAAGCCAAATATCAGATCCAGTGAAAACGCAAGATGTCCCACCAACCAGCCAAGGGGTGGACCACAAGCAGGTCCAAAGAGAACTGGGGAATGTTGTCTTACATCTGCACAACCCGACCATCCTTTCTTCCTCCTCAGTCGAAGTGCACTGGACGGTGGACCAACAATCTCAATATATTCAAGGCTATAAAATTCTCTACCGCCCATCTGGAGCCAGCCATGGTGAATCGGAGTGGTTAGTTTTTGAAGTGAGGACGCCAACGAAAAACAGCGTGGTGATCCCCGATCTCAGAAAAGGCGTCAACTACGAGATTAAGGCTCGCCCATTTTTTAATGAGTTTCAAGGAGCAGACAGTGAAATCAAATTTGCCAAAACCTTAGAAGAAGCACCAAGTGCCCCTCCCCGAAGTGTAACTGTATCCAAGAATGATGGAAATGGGACTGCAATCCTGGTCACTTGGCAACCGCCTCCTGAAGACACACAAAATGGAATGGTCCAAGAATATAAGGTTTGGTGTCTCGGTAATGAAACGAAGTATCACATAAACAAGACAGTCGATGGCTCGACCTTCTCGGTGGTCATCCCCTCTCTGGTTCCTGGGATCCGATACAGTGTGGAGGTGGCAGCGAGCACTGGGGCGGGTCCCGGGGTGAAGAGCGAACCTCAGTTCATCCAGTTAGATTCTCACGGAAACCCCGTGTCTCCCGAGGACCAAGTCAGCCTTGCTCAGCAGATCTCCGACGTGGTGAGGCAGCCGGCGTTCATTGCAGGCATTGGGGCAGCCTGTTGGATTATCCTCATGGTCTTCAGCATCTGGCTTTACAGACACCGCAAGAAGAGAAACGGACTCACCAGCACGTATGCGGGTATCCGGAAAGTCCCGTCCTTTACCTTCACGCCAACAGTAACTTATCAAAGAGGAGGCGAAGCCGTCAGCAGTGGAGGGAGGCCGGGACTCCTCAACATTAGTGAACCTGCCACGCAGCCATGGCTGGCAGACACGTGGCCCAACACAGGCAACAACCACAATGACTGCTCCATCAACTGCTGCACGGCCGGCAATGGCAACAGCGACAGCAACCTGACAACCTACAGTCGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACACAGGCAACAACCAC
60.18
GAGGCTGGCATTCCATGACT
60.11
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACACAGGCAACAACCAC
60.18
GCCTACTGCCACCATGACAT
60.11
149
PCR template sequence:
TGGCCCAACACAGGCAACAACCACAATGACTGCTCCATCAACTGCTGCACGGCCGGCAATGGCAACAGCGACAGCAACCTGACAACCTACAGTCGCCCAGTACTACGGGATGACTTCAGACAAAACCCTTCAGATGTCATGGTGGCAGTAGGCGAACCTGCAGTCATGGAATGCCAGCCTCCACGGGGCCATCCAGAGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-30e-5p(1), mmu-miR-106b-5p(1), mmu-miR-148a-3p(1), mmu-miR-182-5p(1), mmu-miR-324-3p(1), mmu-miR-129-5p(1), mmu-miR-338-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACAGTCGCCCAGTACTACGGGATGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROBO1_2538_ORF_1
0.9302
0.243860425
1
5037
ORF sequence:
ATGGTGGCAGTAGGCGAACCTGCAGTCATGGAATGCCAGCCTCCACGGGGCCATCCAGAGCCCACCATCTCCTGGAAAAAGGATGGCTCACCCCTGGATGATAAAGATGAAAGAATCACTATACGAGGAGGAAAACTCATGATCACTTATACGCGTAAAAGCGATGCTGGCAAGTATGTTTGCGTTGGCACCAACATGGTGGGGGAACGGGAGAGTGAAGTCGCAGAGCTAACCGTTTTAGAGAGACCATCGTTTGTGAAGAGACCCAGTAATTTGGCAGTGACTGTGGATGACAGTGCAGAATTTAAATGTGAGGCCCGAGGAGACCCTGTGCCTACAGTTCGATGGAGGAAAGATGACGGAGAGCTGCCCAAATCCAGATATGAAATCCGAGATGATCATACTTTGAAAATTCGGAAGGTGACTGCTGGCGACATGGGATCATACACTTGTGTGGCAGAAAATATGGTCGGGAAAGCTGAAGCTTCCGCTACTTTGACAGTTCAAGAGCCGCCACATTTCGTTGTAAAACCTCGGGACCAGGTGGTTGCCTTGGGAAGAACTGTGACGTTTCAGTGCGAAGCAACTGGAAATCCTCAACCAGCTATCTTTTGGAGGAGAGAGGGGAGTCAGAATCTACTTTTCTCCTACCAGCCTCCACAGTCCTCTAGCCGATTTTCAGTTTCGCAGACAGGAGACCTCACCATTACGAACGTCCAGCGGTCTGATGTCGGCTACTACATCTGTCAGACTTTAAATGTTGCTGGAAGTATCATCACAAAGGCCTATTTGGAAGTTACTGATGTGATTGCAGACCGGCCTCCCCCAGTCATTCGGCAAGGTCCTGTGAATCAGACTGTAGCAGTGGATGGCACTTTAATCCTCAGCTGTGTGGCCACAGGCAGTCCAGCACCCACAATTCTGTGGAGGAAGGATGGAGTCCTTGTTTCAACCCAAGATTCTCGGATCAAACAGCTGGAGAGTGGCGTGCTGCAGATCCGCTACGCTAAGCTGGGTGACACGGGTCGGTACACCTGCACCGCATCGACCCCCAGCGGTGAGGCCACGTGGAGCGCTTACATCGAAGTCCAGGAATTTGGGGTTCCAGTTCAACCCCCAAGACCCACCGACCCCAACTTAATCCCCAGCGCCCCCTCAAAGCCCGAAGTTACAGATGTCAGCAAAAACACGGTCACTTTATCGTGGCAGCCAAACTTGAACTCAGGAGCAACCCCAACATCTTATATTATAGAAGCCTTCAGCCATGCATCTGGTAGCAGCTGGCAGACGGCGGCAGAAAATGTGAAAACAGAAACATTTGCCATCAAAGGACTCAAACCTAACGCCATTTACCTTTTCCTGGTGAGGGCAGCAAATGCCTATGGAATTAGTGATCCAAGCCAAATATCAGATCCAGTGAAAACGCAAGATGTCCCACCAACCAGCCAAGGGGTGGACCACAAGCAGGTCCAAAGAGAACTGGGGAATGTTGTCTTACATCTGCACAACCCGACCATCCTTTCTTCCTCCTCAGTCGAAGTGCACTGGACGGTGGACCAACAATCTCAATATATTCAAGGCTATAAAATTCTCTACCGCCCATCTGGAGCCAGCCATGGTGAATCGGAGTGGTTAGTTTTTGAAGTGAGGACGCCAACGAAAAACAGCGTGGTGATCCCCGATCTCAGAAAAGGCGTCAACTACGAGATTAAGGCTCGCCCATTTTTTAATGAGTTTCAAGGAGCAGACAGTGAAATCAAATTTGCCAAAACCTTAGAAGAAGCACCAAGTGCCCCTCCCCGAAGTGTAACTGTATCCAAGAATGATGGAAATGGGACTGCAATCCTGGTCACTTGGCAACCGCCTCCTGAAGACACACAAAATGGAATGGTCCAAGAATATAAGGTTTGGTGTCTCGGTAATGAAACGAAGTATCACATAAACAAGACAGTCGATGGCTCGACCTTCTCGGTGGTCATCCCCTCTCTGGTTCCTGGGATCCGATACAGTGTGGAGGTGGCAGCGAGCACTGGGGCGGGTCCCGGGGTGAAGAGCGAACCTCAGTTCATCCAGTTAGATTCTCACGGAAACCCCGTGTCTCCCGAGGACCAAGTCAGCCTTGCTCAGCAGATCTCCGACGTGGTGAGGCAGCCGGCGTTCATTGCAGGCATTGGGGCAGCCTGTTGGATTATCCTCATGGTCTTCAGCATCTGGCTTTACAGACACCGCAAGAAGAGAAACGGACTCACCAGCACGTATGCGGGTATCCGGAAAGTCCCGTCCTTTACCTTCACGCCAACAGTAACTTATCAAAGAGGAGGCGAAGCCGTCAGCAGTGGAGGGAGGCCGGGACTCCTCAACATTAGTGAACCTGCCACGCAGCCATGGCTGGCAGACACGTGGCCCAACACAGGCAACAACCACAATGACTGCTCCATCAACTGCTGCACGGCCGGCAATGGCAACAGCGACAGCAACCTGACAACCTACAGTCGCCCAGTACTACGGGATGACTTCAGACAAAACCCTTCAGATGTCATGGTGGCAGTAGGCGAACCTGCAGTCATGGAATGCCAGCCTCCACGGGGCCATCCAGAGCCCACCATCTCCTGGAAAAAGGATGGCTCACCCCTGGATGATAAAGATGAAAGAATCACTATACGAGGAGGAAAACTCATGATCACTTATACGCGTAAAAGCGATGCTGGCAAGTATGTTTGCGTTGGCACCAACATGGTGGGGGAACGGGAGAGTGAAGTCGCAGAGCTAACCGTTTTAGAGAGACCATCGTTTGTGAAGAGACCCAGTAATTTGGCAGTGACTGTGGATGACAGTGCAGAATTTAAATGTGAGGCCCGAGGAGACCCTGTGCCTACAGTTCGATGGAGGAAAGATGACGGAGAGCTGCCCAAATCCAGATATGAAATCCGAGATGATCATACTTTGAAAATTCGGAAGGTGACTGCTGGCGACATGGGATCATACACTTGTGTGGCAGAAAATATGGTCGGGAAAGCTGAAGCTTCCGCTACTTTGACAGTTCAAGAGCCGCCACATTTCGTTGTAAAACCTCGGGACCAGGTGGTTGCCTTGGGAAGAACTGTGACGTTTCAGTGCGAAGCAACTGGAAATCCTCAACCAGCTATCTTTTGGAGGAGAGAGGGGAGTCAGAATCTACTTTTCTCCTACCAGCCTCCACAGTCCTCTAGCCGATTTTCAGTTTCGCAGACAGGAGACCTCACCATTACGAACGTCCAGCGGTCTGATGTCGGCTACTACATCTGTCAGACTTTAAATGTTGCTGGAAGTATCATCACAAAGGCCTATTTGGAAGTTACTGATGTGATTGCAGACCGGCCTCCCCCAGTCATTCGGCAAGGTCCTGTGAATCAGACTGTAGCAGTGGATGGCACTTTAATCCTCAGCTGTGTGGCCACAGGCAGTCCAGCACCCACAATTCTGTGGAGGAAGGATGGAGTCCTTGTTTCAACCCAAGATTCTCGGATCAAACAGCTGGAGAGTGGCGTGCTGCAGATCCGCTACGCTAAGCTGGGTGACACGGGTCGGTACACCTGCACCGCATCGACCCCCAGCGGTGAGGCCACGTGGAGCGCTTACATCGAAGTCCAGGAATTTGGGGTTCCAGTTCAACCCCCAAGACCCACCGACCCCAACTTAATCCCCAGCGCCCCCTCAAAGCCCGAAGTTACAGATGTCAGCAAAAACACGGTCACTTTATCGTGGCAGCCAAACTTGAACTCAGGAGCAACCCCAACATCTTATATTATAGAAGCCTTCAGCCATGCATCTGGTAGCAGCTGGCAGACGGCGGCAGAAAATGTGAAAACAGAAACATTTGCCATCAAAGGACTCAAACCTAACGCCATTTACCTTTTCCTGGTGAGGGCAGCAAATGCCTATGGAATTAGTGATCCAAGCCAAATATCAGATCCAGTGAAAACGCAAGATGTCCCACCAACCAGCCAAGGGGTGGACCACAAGCAGGTCCAAAGAGAACTGGGGAATGTTGTCTTACATCTGCACAACCCGACCATCCTTTCTTCCTCCTCAGTCGAAGTGCACTGGACGGTGGACCAACAATCTCAATATATTCAAGGCTATAAAATTCTCTACCGCCCATCTGGAGCCAGCCATGGTGAATCGGAGTGGTTAGTTTTTGAAGTGAGGACGCCAACGAAAAACAGCGTGGTGATCCCCGATCTCAGAAAAGGCGTCAACTACGAGATTAAGGCTCGCCCATTTTTTAATGAGTTTCAAGGAGCAGACAGTGAAATCAAATTTGCCAAAACCTTAGAAGAAGCACCAAGTGCCCCTCCCCGAAGTGTAACTGTATCCAAGAATGATGGAAATGGGACTGCAATCCTGGTCACTTGGCAACCGCCTCCTGAAGACACACAAAATGGAATGGTCCAAGAATATAAGGTTTGGTGTCTCGGTAATGAAACGAAGTATCACATAAACAAGACAGTCGATGGCTCGACCTTCTCGGTGGTCATCCCCTCTCTGGTTCCTGGGATCCGATACAGTGTGGAGGTGGCAGCGAGCACTGGGGCGGGTCCCGGGGTGAAGAGCGAACCTCAGTTCATCCAGTTAGATTCTCACGGAAACCCCGTGTCTCCCGAGGACCAAGTCAGCCTTGCTCAGCAGATCTCCGACGTGGTGAGGCAGCCGGCGTTCATTGCAGGCATTGGGGCAGCCTGTTGGATTATCCTCATGGTCTTCAGCATCTGGCTTTACAGACACCGCAAGAAGAGAAACGGACTCACCAGCACGTATGCGGGTATCCGGAAAGTCCCGTCCTTTACCTTCACGCCAACAGTAACTTATCAAAGAGGAGGCGAAGCCGTCAGCAGTGGAGGGAGGCCGGGACTCCTCAACATTAGTGAACCTGCCACGCAGCCATGGCTGGCAGACACGTGGCCCAACACAGGCAACAACCACAATGACTGCTCCATCAACTGCTGCACGGCCGGCAATGGCAACAGCGACAGCAACCTGACAACCTACAGTCGCCCA
Peptide sequence:
MVAVGEPAVMECQPPRGHPEPTISWKKDGSPLDDKDERITIRGGKLMITYTRKSDAGKYVCVGTNMVGERESEVAELTVLERPSFVKRPSNLAVTVDDSAEFKCEARGDPVPTVRWRKDDGELPKSRYEIRDDHTLKIRKVTAGDMGSYTCVAENMVGKAEASATLTVQEPPHFVVKPRDQVVALGRTVTFQCEATGNPQPAIFWRREGSQNLLFSYQPPQSSSRFSVSQTGDLTITNVQRSDVGYYICQTLNVAGSIITKAYLEVTDVIADRPPPVIRQGPVNQTVAVDGTLILSCVATGSPAPTILWRKDGVLVSTQDSRIKQLESGVLQIRYAKLGDTGRYTCTASTPSGEATWSAYIEVQEFGVPVQPPRPTDPNLIPSAPSKPEVTDVSKNTVTLSWQPNLNSGATPTSYIIEAFSHASGSSWQTAAENVKTETFAIKGLKPNAIYLFLVRAANAYGISDPSQISDPVKTQDVPPTSQGVDHKQVQRELGNVVLHLHNPTILSSSSVEVHWTVDQQSQYIQGYKILYRPSGASHGESEWLVFEVRTPTKNSVVIPDLRKGVNYEIKARPFFNEFQGADSEIKFAKTLEEAPSAPPRSVTVSKNDGNGTAILVTWQPPPEDTQNGMVQEYKVWCLGNETKYHINKTVDGSTFSVVIPSLVPGIRYSVEVAASTGAGPGVKSEPQFIQLDSHGNPVSPEDQVSLAQQISDVVRQPAFIAGIGAACWIILMVFSIWLYRHRKKRNGLTSTYAGIRKVPSFTFTPTVTYQRGGEAVSSGGRPGLLNISEPATQPWLADTWPNTGNNHNDCSINCCTAGNGNSDSNLTTYSRPVLRDDFRQNPSDVMVAVGEPAVMECQPPRGHPEPTISWKKDGSPLDDKDERITIRGGKLMITYTRKSDAGKYVCVGTNMVGERESEVAELTVLERPSFVKRPSNLAVTVDDSAEFKCEARGDPVPTVRWRKDDGELPKSRYEIRDDHTLKIRKVTAGDMGSYTCVAENMVGKAEASATLTVQEPPHFVVKPRDQVVALGRTVTFQCEATGNPQPAIFWRREGSQNLLFSYQPPQSSSRFSVSQTGDLTITNVQRSDVGYYICQTLNVAGSIITKAYLEVTDVIADRPPPVIRQGPVNQTVAVDGTLILSCVATGSPAPTILWRKDGVLVSTQDSRIKQLESGVLQIRYAKLGDTGRYTCTASTPSGEATWSAYIEVQEFGVPVQPPRPTDPNLIPSAPSKPEVTDVSKNTVTLSWQPNLNSGATPTSYIIEAFSHASGSSWQTAAENVKTETFAIKGLKPNAIYLFLVRAANAYGISDPSQISDPVKTQDVPPTSQGVDHKQVQRELGNVVLHLHNPTILSSSSVEVHWTVDQQSQYIQGYKILYRPSGASHGESEWLVFEVRTPTKNSVVIPDLRKGVNYEIKARPFFNEFQGADSEIKFAKTLEEAPSAPPRSVTVSKNDGNGTAILVTWQPPPEDTQNGMVQEYKVWCLGNETKYHINKTVDGSTFSVVIPSLVPGIRYSVEVAASTGAGPGVKSEPQFIQLDSHGNPVSPEDQVSLAQQISDVVRQPAFIAGIGAACWIILMVFSIWLYRHRKKRNGLTSTYAGIRKVPSFTFTPTVTYQRGGEAVSSGGRPGLLNISEPATQPWLADTWPNTGNNHNDCSINCCTAGNGNSDSNLTTYSRP
IRESfinder result
IRESfinder score
0.376721803
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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