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mmu_circAtrnl1_1488
Basic information of circular RNA
PanCircBase ID:
mmu_circAtrnl1_1488
mm39_Chr. Position ID:
chr19|57670802|57703155|+
Gene name:
Atrnl1
Transcript:
ENSMUST00000077282.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,12,13,14,15,16,17,18,19
Exon/intron offsets:
0,3133,4288,9396,13803,17146,19617,24544,32215
Genomic length:
32353
Exon/intron sizes in nt:
8,52,09,11,91,33,18,22,00,00,00,00,000
Flanking exon/introns:
chr19:57661705-57670802|chr19:57703155-57719983
Splice length:
1488
Other database IDs:
circBase: mmu_circ_0007927, CIRCpedia: MMU_CIRCpedia_23909, circAtlas: mmu-Atrnl1_0021
circBase: hsa_circ_0092783, circAtlas: hsa-ATRNL1_0030, CIRCpedia: HSA_CIRCpedia_143530
Human Ortholog IDs:
Mature spliced Sequence:
CTTGTGACGAATGGAAGACATTGCCTAAACCAAATCTCCATAGAGATGTCAACCGATTTGGGCATTCTGCAGTCGTCATCAATGGGTCAATGTATATATTTGGTGGATTTTCTAGTGTACTCCTTAATGATATCCTTGTGTATAAACCCCCAAATTGCAAAGCTTTCCGAGATGAAGAACTGTGCAGAAACGCTGGTCCAGGGATAAAATGTGTTTGGAATAAGAATCACTGTGAATCTTGGGAGTCTGGGAATACAAATAATATTCTCAGAGCCAAGTGCCCTCCCAAGACAGCTGCTACCGATGACAGATGTTACAGATATGCTGACTGTGCCAGCTGCACAGCCAACACGAACGGGTGCCAGTGGTGTGACGACAAGAAATGCATCTCAGCCAGCAGCAACTGCAGCACGTCTGTCAGAAACTACACTAAATGTCATATAAGAAATGAGCAGATTTGTAACAAACTTACAAGCTGTAAAAGCTGTTCACTCAACTTGAATTGCCAGTGGGATCAGCGGCAGCAGGAATGTCAGGCTTTGCCAGCTCACCTTTGTGGAGAAGGCTGGAATCATGTTGGGGACGCTTGTCTTCGAATCAATTCCAGTCGAGAAAGCTATGATAATGCCAAACTTTATTGCTATAACCTCAGTGGAAATCTCGCCTCCCTGACCACGTCCAAGGAGGTGGAGTTTGTGTTGGATGAAATACAGAAGTTCACACAGCAGAAAGTGTCACCGTGGGTAGGCCTACGCAAGATCAACATATCCTACTGGGGATGGGAGGACATGTCTCCTTTCACAAATACAAGCCTGCAGTGGCTTCCTGGTGAGCCAAATGACTCTGGATTCTGTGCCTACTTAGAAAGGGCTGCAGTGGCAGGGTTAAAAGCAAACCCTTGCACATCCATGGCAGATGGACTCGTTTGTGAAAAGCCTGTAGTAAGCCCAAATCAGAACGCGAGGCCGTGCAAGAAGCCGTGCTCCCTGAGGACCTCCTGCGCCAACTGCACGAGCAGCGGCATGGAGTGCATGTGGTGCAGCAGCACGAAGCGCTGCGTGGACTCCAACGCTTACATCATCTCCTTTCCCTACGGACAGTGCCTGGAGTGGCAGACTGCCACCTGCTCGCCTCAAAATTGTTCTGGGTTAAGAACCTGTGGACAGTGCTTGGAGCAGCCTGGGTGTGGCTGGTGCAACGATCCTAGTAACACAGGAAGAGGCTATTGCATCGAAGGGTCTTCCCGGGGCCCAATGAAACTCGCGGGGGTCCACAACAGTGACGTGGTTCTTGACACCAGCCTCTGCCCCAAGGAGAAGAACTACGAGTGGTCTTTTATCCAGTGTCCAGCTTGCCAGTGTAATGGACACAGCACGTGCATCAACAACAACGTCTGTGAGCAGTGTAAGAATCTCACCACTGGGCGACAGTGTCAGGAATGCATGCCAGGGTACTATGGAGACCCAACCAACGGTGGGCAGTGCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAATCTCACCACTGGGCG
60.04
ACCCATTGATGACGACTGCA
59.68
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTCAGGAATGCATGCCA
59.96
ACCCATTGATGACGACTGCA
59.68
147
PCR template sequence:
AACGTCTGTGAGCAGTGTAAGAATCTCACCACTGGGCGACAGTGTCAGGAATGCATGCCAGGGTACTATGGAGACCCAACCAACGGTGGGCAGTGCACAGCTTGTGACGAATGGAAGACATTGCCTAAACCAAATCTCCATAGAGATGTCAACCGATTTGGGCATTCTGCAGTCGTCATCAATGGGTCAATGTATATATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-7b-5p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-434-5p(1), mmu-miR-433-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-324-3p(1), mmu-miR-190b-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGCAGTGCACAGCTTGTGACGAATG
siRNA sets
CATTCGTCACAAGCTGTGC,ATTCGTCACAAGCTGTGCA,TTCGTCACAAGCTGTGCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATRNL1_1488_ORF_1
0.8201
0.13160829
0.999999977
2886
ORF sequence:
ATGTATATATTTGGTGGATTTTCTAGTGTACTCCTTAATGATATCCTTGTGTATAAACCCCCAAATTGCAAAGCTTTCCGAGATGAAGAACTGTGCAGAAACGCTGGTCCAGGGATAAAATGTGTTTGGAATAAGAATCACTGTGAATCTTGGGAGTCTGGGAATACAAATAATATTCTCAGAGCCAAGTGCCCTCCCAAGACAGCTGCTACCGATGACAGATGTTACAGATATGCTGACTGTGCCAGCTGCACAGCCAACACGAACGGGTGCCAGTGGTGTGACGACAAGAAATGCATCTCAGCCAGCAGCAACTGCAGCACGTCTGTCAGAAACTACACTAAATGTCATATAAGAAATGAGCAGATTTGTAACAAACTTACAAGCTGTAAAAGCTGTTCACTCAACTTGAATTGCCAGTGGGATCAGCGGCAGCAGGAATGTCAGGCTTTGCCAGCTCACCTTTGTGGAGAAGGCTGGAATCATGTTGGGGACGCTTGTCTTCGAATCAATTCCAGTCGAGAAAGCTATGATAATGCCAAACTTTATTGCTATAACCTCAGTGGAAATCTCGCCTCCCTGACCACGTCCAAGGAGGTGGAGTTTGTGTTGGATGAAATACAGAAGTTCACACAGCAGAAAGTGTCACCGTGGGTAGGCCTACGCAAGATCAACATATCCTACTGGGGATGGGAGGACATGTCTCCTTTCACAAATACAAGCCTGCAGTGGCTTCCTGGTGAGCCAAATGACTCTGGATTCTGTGCCTACTTAGAAAGGGCTGCAGTGGCAGGGTTAAAAGCAAACCCTTGCACATCCATGGCAGATGGACTCGTTTGTGAAAAGCCTGTAGTAAGCCCAAATCAGAACGCGAGGCCGTGCAAGAAGCCGTGCTCCCTGAGGACCTCCTGCGCCAACTGCACGAGCAGCGGCATGGAGTGCATGTGGTGCAGCAGCACGAAGCGCTGCGTGGACTCCAACGCTTACATCATCTCCTTTCCCTACGGACAGTGCCTGGAGTGGCAGACTGCCACCTGCTCGCCTCAAAATTGTTCTGGGTTAAGAACCTGTGGACAGTGCTTGGAGCAGCCTGGGTGTGGCTGGTGCAACGATCCTAGTAACACAGGAAGAGGCTATTGCATCGAAGGGTCTTCCCGGGGCCCAATGAAACTCGCGGGGGTCCACAACAGTGACGTGGTTCTTGACACCAGCCTCTGCCCCAAGGAGAAGAACTACGAGTGGTCTTTTATCCAGTGTCCAGCTTGCCAGTGTAATGGACACAGCACGTGCATCAACAACAACGTCTGTGAGCAGTGTAAGAATCTCACCACTGGGCGACAGTGTCAGGAATGCATGCCAGGGTACTATGGAGACCCAACCAACGGTGGGCAGTGCACAGCTTGTGACGAATGGAAGACATTGCCTAAACCAAATCTCCATAGAGATGTCAACCGATTTGGGCATTCTGCAGTCGTCATCAATGGGTCAATGTATATATTTGGTGGATTTTCTAGTGTACTCCTTAATGATATCCTTGTGTATAAACCCCCAAATTGCAAAGCTTTCCGAGATGAAGAACTGTGCAGAAACGCTGGTCCAGGGATAAAATGTGTTTGGAATAAGAATCACTGTGAATCTTGGGAGTCTGGGAATACAAATAATATTCTCAGAGCCAAGTGCCCTCCCAAGACAGCTGCTACCGATGACAGATGTTACAGATATGCTGACTGTGCCAGCTGCACAGCCAACACGAACGGGTGCCAGTGGTGTGACGACAAGAAATGCATCTCAGCCAGCAGCAACTGCAGCACGTCTGTCAGAAACTACACTAAATGTCATATAAGAAATGAGCAGATTTGTAACAAACTTACAAGCTGTAAAAGCTGTTCACTCAACTTGAATTGCCAGTGGGATCAGCGGCAGCAGGAATGTCAGGCTTTGCCAGCTCACCTTTGTGGAGAAGGCTGGAATCATGTTGGGGACGCTTGTCTTCGAATCAATTCCAGTCGAGAAAGCTATGATAATGCCAAACTTTATTGCTATAACCTCAGTGGAAATCTCGCCTCCCTGACCACGTCCAAGGAGGTGGAGTTTGTGTTGGATGAAATACAGAAGTTCACACAGCAGAAAGTGTCACCGTGGGTAGGCCTACGCAAGATCAACATATCCTACTGGGGATGGGAGGACATGTCTCCTTTCACAAATACAAGCCTGCAGTGGCTTCCTGGTGAGCCAAATGACTCTGGATTCTGTGCCTACTTAGAAAGGGCTGCAGTGGCAGGGTTAAAAGCAAACCCTTGCACATCCATGGCAGATGGACTCGTTTGTGAAAAGCCTGTAGTAAGCCCAAATCAGAACGCGAGGCCGTGCAAGAAGCCGTGCTCCCTGAGGACCTCCTGCGCCAACTGCACGAGCAGCGGCATGGAGTGCATGTGGTGCAGCAGCACGAAGCGCTGCGTGGACTCCAACGCTTACATCATCTCCTTTCCCTACGGACAGTGCCTGGAGTGGCAGACTGCCACCTGCTCGCCTCAAAATTGTTCTGGGTTAAGAACCTGTGGACAGTGCTTGGAGCAGCCTGGGTGTGGCTGGTGCAACGATCCTAGTAACACAGGAAGAGGCTATTGCATCGAAGGGTCTTCCCGGGGCCCAATGAAACTCGCGGGGGTCCACAACAGTGACGTGGTTCTTGACACCAGCCTCTGCCCCAAGGAGAAGAACTACGAGTGGTCTTTTATCCAGTGTCCAGCTTGCCAGTGTAATGGACACAGCACGTGCATCAACAACAACGTCTGTGAGCAGTGTAAGAATCTCACCACTGGGCGACAGTGTCAGGAATGCATGCCAGGGTACTATGGAGACCCAACCAACGGTGGGCAGTGCACA
Peptide sequence:
MYIFGGFSSVLLNDILVYKPPNCKAFRDEELCRNAGPGIKCVWNKNHCESWESGNTNNILRAKCPPKTAATDDRCYRYADCASCTANTNGCQWCDDKKCISASSNCSTSVRNYTKCHIRNEQICNKLTSCKSCSLNLNCQWDQRQQECQALPAHLCGEGWNHVGDACLRINSSRESYDNAKLYCYNLSGNLASLTTSKEVEFVLDEIQKFTQQKVSPWVGLRKINISYWGWEDMSPFTNTSLQWLPGEPNDSGFCAYLERAAVAGLKANPCTSMADGLVCEKPVVSPNQNARPCKKPCSLRTSCANCTSSGMECMWCSSTKRCVDSNAYIISFPYGQCLEWQTATCSPQNCSGLRTCGQCLEQPGCGWCNDPSNTGRGYCIEGSSRGPMKLAGVHNSDVVLDTSLCPKEKNYEWSFIQCPACQCNGHSTCINNNVCEQCKNLTTGRQCQECMPGYYGDPTNGGQCTACDEWKTLPKPNLHRDVNRFGHSAVVINGSMYIFGGFSSVLLNDILVYKPPNCKAFRDEELCRNAGPGIKCVWNKNHCESWESGNTNNILRAKCPPKTAATDDRCYRYADCASCTANTNGCQWCDDKKCISASSNCSTSVRNYTKCHIRNEQICNKLTSCKSCSLNLNCQWDQRQQECQALPAHLCGEGWNHVGDACLRINSSRESYDNAKLYCYNLSGNLASLTTSKEVEFVLDEIQKFTQQKVSPWVGLRKINISYWGWEDMSPFTNTSLQWLPGEPNDSGFCAYLERAAVAGLKANPCTSMADGLVCEKPVVSPNQNARPCKKPCSLRTSCANCTSSGMECMWCSSTKRCVDSNAYIISFPYGQCLEWQTATCSPQNCSGLRTCGQCLEQPGCGWCNDPSNTGRGYCIEGSSRGPMKLAGVHNSDVVLDTSLCPKEKNYEWSFIQCPACQCNGHSTCINNNVCEQCKNLTTGRQCQECMPGYYGDPTNGGQCT
IRESfinder result
IRESfinder score
0.448303707
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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