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mmu_circAtrnl1_2899
Basic information of circular RNA
PanCircBase ID:
mmu_circAtrnl1_2899
mm39_Chr. Position ID:
chr19|57641354|57924136|+
Gene name:
Atrnl1
Transcript:
ENSMUST00000077282.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
21
Exon/intron indexes:
7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27
Exon/intron offsets:
0,1848,4132,20196,29448,32581,33736,38844,43251,46594,49065,53992,61663,78629,87257,98707,100302,102538,124961,144502,282674
Genomic length:
282782
Exon/intron sizes in nt:
88,256,184,155,85,209,119,133,182,214,189,219,138,94,53,95,79,158,62,79,108
Flanking exon/introns:
chr19:57638864-57641354|chr19:57924136-58030759
Splice length:
2899
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTACAATTTAGAAAGCAGTATATGGAATGTAGGTGCTGTATCAAGGGGCCCTCTTCAGAGATACGGACATTCTCTTGCCCTCTATCAGGAAAACATCTTTATGTACGGAGGCAGAATGGAGACCAGTGATGGCAACGTCACCGATGAATTATGGGTGTTTAACGTACGCAGTCAATCATGGAGCACGAAAACCCCCACTGTCCTTGGCCACAGTCAGCAGTACGCTGTGGAGGGACACTCGGCACACATCATGGAGCTGGACAGTAGAGACGTGGTCATGATTGTCATATTTGGATATTCTGCAATATATGGCTATACCAGCAGCATACAGGAATACCATATCTCCTCAAACACTTGGCTAGTTCCAGAAACGAAAGGAGCCATTGTGCAAGGTGGATATGGCCACACAAGTGTGTATGACGAAGTGACCAAGTCCATCTATGTTCACGGAGGCTACAAAGCATTGCCTGGCAATAAGTACGGGCTGGTGGACGACCTCTATAAGTACGAAGTCAACACCAGGACTTGGACTATTTTGAAAGAAAGTGGGTTTGCCAGATACCTTCACTCAGCTGTTCTTATCAATGGAGCTATGCTTATTTTTGGAGGAAATACCCATAATGATACTTCCCTGAGTAACGGTGCAAAATGTTTTTCTGCCGATTTCCTGGCATATGACATAGCTTGTGACGAATGGAAGACATTGCCTAAACCAAATCTCCATAGAGATGTCAACCGATTTGGGCATTCTGCAGTCGTCATCAATGGGTCAATGTATATATTTGGTGGATTTTCTAGTGTACTCCTTAATGATATCCTTGTGTATAAACCCCCAAATTGCAAAGCTTTCCGAGATGAAGAACTGTGCAGAAACGCTGGTCCAGGGATAAAATGTGTTTGGAATAAGAATCACTGTGAATCTTGGGAGTCTGGGAATACAAATAATATTCTCAGAGCCAAGTGCCCTCCCAAGACAGCTGCTACCGATGACAGATGTTACAGATATGCTGACTGTGCCAGCTGCACAGCCAACACGAACGGGTGCCAGTGGTGTGACGACAAGAAATGCATCTCAGCCAGCAGCAACTGCAGCACGTCTGTCAGAAACTACACTAAATGTCATATAAGAAATGAGCAGATTTGTAACAAACTTACAAGCTGTAAAAGCTGTTCACTCAACTTGAATTGCCAGTGGGATCAGCGGCAGCAGGAATGTCAGGCTTTGCCAGCTCACCTTTGTGGAGAAGGCTGGAATCATGTTGGGGACGCTTGTCTTCGAATCAATTCCAGTCGAGAAAGCTATGATAATGCCAAACTTTATTGCTATAACCTCAGTGGAAATCTCGCCTCCCTGACCACGTCCAAGGAGGTGGAGTTTGTGTTGGATGAAATACAGAAGTTCACACAGCAGAAAGTGTCACCGTGGGTAGGCCTACGCAAGATCAACATATCCTACTGGGGATGGGAGGACATGTCTCCTTTCACAAATACAAGCCTGCAGTGGCTTCCTGGTGAGCCAAATGACTCTGGATTCTGTGCCTACTTAGAAAGGGCTGCAGTGGCAGGGTTAAAAGCAAACCCTTGCACATCCATGGCAGATGGACTCGTTTGTGAAAAGCCTGTAGTAAGCCCAAATCAGAACGCGAGGCCGTGCAAGAAGCCGTGCTCCCTGAGGACCTCCTGCGCCAACTGCACGAGCAGCGGCATGGAGTGCATGTGGTGCAGCAGCACGAAGCGCTGCGTGGACTCCAACGCTTACATCATCTCCTTTCCCTACGGACAGTGCCTGGAGTGGCAGACTGCCACCTGCTCGCCTCAAAATTGTTCTGGGTTAAGAACCTGTGGACAGTGCTTGGAGCAGCCTGGGTGTGGCTGGTGCAACGATCCTAGTAACACAGGAAGAGGCTATTGCATCGAAGGGTCTTCCCGGGGCCCAATGAAACTCGCGGGGGTCCACAACAGTGACGTGGTTCTTGACACCAGCCTCTGCCCCAAGGAGAAGAACTACGAGTGGTCTTTTATCCAGTGTCCAGCTTGCCAGTGTAATGGACACAGCACGTGCATCAACAACAACGTCTGTGAGCAGTGTAAGAATCTCACCACTGGGCGACAGTGTCAGGAATGCATGCCAGGGTACTATGGAGACCCAACCAACGGTGGGCAGTGCACAGCTTGCACGTGCGGCGGCCATGCGAACGTCTGTCACCTGCACACGGGAAAGTGTTTTTGCACAACCAAGGGGATCAAGGGTGACCAGTGCCAGCTATGTGACTCTGAAAATCGCTATGTTGGTAATCCACTTAGGGGGACATGCTATTACAGTCTTCTGATTGACTACCAGTTTACCTTCAGCTTGCTGCAGGAAGATGACCGGCACCACACTGCCATCAACTTCATCGCCAACCCAGAGCAGTCAAACAAAAACTTGGACATTTCGATTAATGCTTCCAACAACTTTAATCTCAACATTACGTGGTCAGTTGGCTCAACAGGTGGAACCATATCTGGGGAAGAGACTCCTATAGTTTCTAAGACAAATATAAAGGAATACAGAGACAGCTTTTCCTATGAAAAATTTAACTTCAGAAGCAATCCTAATATCACATTTTATGTGTATGTCAGCAACTTCTCCTGGCCTATTAAAATACAGATTGCGTTTTCACAACACAACACAATCATGGATCTCGTGCAGTTCTTTGTCACCTTCTTCAGTTGTTTTTTATCTTTACTGCTGGTGGCTGCTGTGGTCTGGAAGATCAAACAAACTTGCTGGGCTTCTCGTCGGAGGGAGCAACTGCTTCGAGAACGACAGCAGATGGCCAGCCGTCCCTTTGCTTCTGTTGATGTAGCCCTGGAAGTAGGAGCTGAACAGACAGACTTTCTGCGAGGGCCATTAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGAGAACGACAGCAGATGG
59.83
ATCTCTGAAGAGGGCCCCTT
59.95
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGAGAACGACAGCAGATGG
59.83
TCTGAAGAGGGCCCCTTGAT
60.25
159
PCR template sequence:
TCGAGAACGACAGCAGATGGCCAGCCGTCCCTTTGCTTCTGTTGATGTAGCCCTGGAAGTAGGAGCTGAACAGACAGACTTTCTGCGAGGGCCATTAGAGTTACAATTTAGAAAGCAGTATATGGAATGTAGGTGCTGTATCAAGGGGCCCTCTTCAGAGATACGGACATTCTCTTGCCCTCTATCAGGAAAACATCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-7b-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-138-5p(1), mmu-miR-136-5p(1), mmu-miR-434-5p(1), mmu-miR-433-5p(1), mmu-miR-363-3p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-324-3p(1), mmu-miR-34b-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-190b-5p(1), mmu-miR-129-5p(1), mmu-miR-5101(1), mmu-miR-669d-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGCCATTAGAGTTACAATTTAGAA
siRNA sets
AAATTGTAACTCTAATGGC, TAAATTGTAACTCTAATGG, ATTGTAACTCTAATGGCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATRNL1_2899_ORF_1
0.8242
0.135036088
0.999999982
2928
ORF sequence:
ATGTACGGAGGCAGAATGGAGACCAGTGATGGCAACGTCACCGATGAATTATGGGTGTTTAACGTACGCAGTCAATCATGGAGCACGAAAACCCCCACTGTCCTTGGCCACAGTCAGCAGTACGCTGTGGAGGGACACTCGGCACACATCATGGAGCTGGACAGTAGAGACGTGGTCATGATTGTCATATTTGGATATTCTGCAATATATGGCTATACCAGCAGCATACAGGAATACCATATCTCCTCAAACACTTGGCTAGTTCCAGAAACGAAAGGAGCCATTGTGCAAGGTGGATATGGCCACACAAGTGTGTATGACGAAGTGACCAAGTCCATCTATGTTCACGGAGGCTACAAAGCATTGCCTGGCAATAAGTACGGGCTGGTGGACGACCTCTATAAGTACGAAGTCAACACCAGGACTTGGACTATTTTGAAAGAAAGTGGGTTTGCCAGATACCTTCACTCAGCTGTTCTTATCAATGGAGCTATGCTTATTTTTGGAGGAAATACCCATAATGATACTTCCCTGAGTAACGGTGCAAAATGTTTTTCTGCCGATTTCCTGGCATATGACATAGCTTGTGACGAATGGAAGACATTGCCTAAACCAAATCTCCATAGAGATGTCAACCGATTTGGGCATTCTGCAGTCGTCATCAATGGGTCAATGTATATATTTGGTGGATTTTCTAGTGTACTCCTTAATGATATCCTTGTGTATAAACCCCCAAATTGCAAAGCTTTCCGAGATGAAGAACTGTGCAGAAACGCTGGTCCAGGGATAAAATGTGTTTGGAATAAGAATCACTGTGAATCTTGGGAGTCTGGGAATACAAATAATATTCTCAGAGCCAAGTGCCCTCCCAAGACAGCTGCTACCGATGACAGATGTTACAGATATGCTGACTGTGCCAGCTGCACAGCCAACACGAACGGGTGCCAGTGGTGTGACGACAAGAAATGCATCTCAGCCAGCAGCAACTGCAGCACGTCTGTCAGAAACTACACTAAATGTCATATAAGAAATGAGCAGATTTGTAACAAACTTACAAGCTGTAAAAGCTGTTCACTCAACTTGAATTGCCAGTGGGATCAGCGGCAGCAGGAATGTCAGGCTTTGCCAGCTCACCTTTGTGGAGAAGGCTGGAATCATGTTGGGGACGCTTGTCTTCGAATCAATTCCAGTCGAGAAAGCTATGATAATGCCAAACTTTATTGCTATAACCTCAGTGGAAATCTCGCCTCCCTGACCACGTCCAAGGAGGTGGAGTTTGTGTTGGATGAAATACAGAAGTTCACACAGCAGAAAGTGTCACCGTGGGTAGGCCTACGCAAGATCAACATATCCTACTGGGGATGGGAGGACATGTCTCCTTTCACAAATACAAGCCTGCAGTGGCTTCCTGGTGAGCCAAATGACTCTGGATTCTGTGCCTACTTAGAAAGGGCTGCAGTGGCAGGGTTAAAAGCAAACCCTTGCACATCCATGGCAGATGGACTCGTTTGTGAAAAGCCTGTAGTAAGCCCAAATCAGAACGCGAGGCCGTGCAAGAAGCCGTGCTCCCTGAGGACCTCCTGCGCCAACTGCACGAGCAGCGGCATGGAGTGCATGTGGTGCAGCAGCACGAAGCGCTGCGTGGACTCCAACGCTTACATCATCTCCTTTCCCTACGGACAGTGCCTGGAGTGGCAGACTGCCACCTGCTCGCCTCAAAATTGTTCTGGGTTAAGAACCTGTGGACAGTGCTTGGAGCAGCCTGGGTGTGGCTGGTGCAACGATCCTAGTAACACAGGAAGAGGCTATTGCATCGAAGGGTCTTCCCGGGGCCCAATGAAACTCGCGGGGGTCCACAACAGTGACGTGGTTCTTGACACCAGCCTCTGCCCCAAGGAGAAGAACTACGAGTGGTCTTTTATCCAGTGTCCAGCTTGCCAGTGTAATGGACACAGCACGTGCATCAACAACAACGTCTGTGAGCAGTGTAAGAATCTCACCACTGGGCGACAGTGTCAGGAATGCATGCCAGGGTACTATGGAGACCCAACCAACGGTGGGCAGTGCACAGCTTGCACGTGCGGCGGCCATGCGAACGTCTGTCACCTGCACACGGGAAAGTGTTTTTGCACAACCAAGGGGATCAAGGGTGACCAGTGCCAGCTATGTGACTCTGAAAATCGCTATGTTGGTAATCCACTTAGGGGGACATGCTATTACAGTCTTCTGATTGACTACCAGTTTACCTTCAGCTTGCTGCAGGAAGATGACCGGCACCACACTGCCATCAACTTCATCGCCAACCCAGAGCAGTCAAACAAAAACTTGGACATTTCGATTAATGCTTCCAACAACTTTAATCTCAACATTACGTGGTCAGTTGGCTCAACAGGTGGAACCATATCTGGGGAAGAGACTCCTATAGTTTCTAAGACAAATATAAAGGAATACAGAGACAGCTTTTCCTATGAAAAATTTAACTTCAGAAGCAATCCTAATATCACATTTTATGTGTATGTCAGCAACTTCTCCTGGCCTATTAAAATACAGATTGCGTTTTCACAACACAACACAATCATGGATCTCGTGCAGTTCTTTGTCACCTTCTTCAGTTGTTTTTTATCTTTACTGCTGGTGGCTGCTGTGGTCTGGAAGATCAAACAAACTTGCTGGGCTTCTCGTCGGAGGGAGCAACTGCTTCGAGAACGACAGCAGATGGCCAGCCGTCCCTTTGCTTCTGTTGATGTAGCCCTGGAAGTAGGAGCTGAACAGACAGACTTTCTGCGAGGGCCATTAGAGTTACAATTTAGAAAGCAGTATATGGAATGTAGGTGCTGTATCAAGGGGCCCTCTTCAGAGATACGGACATTCTCTTGCCCTCTATCAGGAAAACATCTTTATGTACGGAGGCAGAATGGAGACCAGTGA
Peptide sequence:
MYGGRMETSDGNVTDELWVFNVRSQSWSTKTPTVLGHSQQYAVEGHSAHIMELDSRDVVMIVIFGYSAIYGYTSSIQEYHISSNTWLVPETKGAIVQGGYGHTSVYDEVTKSIYVHGGYKALPGNKYGLVDDLYKYEVNTRTWTILKESGFARYLHSAVLINGAMLIFGGNTHNDTSLSNGAKCFSADFLAYDIACDEWKTLPKPNLHRDVNRFGHSAVVINGSMYIFGGFSSVLLNDILVYKPPNCKAFRDEELCRNAGPGIKCVWNKNHCESWESGNTNNILRAKCPPKTAATDDRCYRYADCASCTANTNGCQWCDDKKCISASSNCSTSVRNYTKCHIRNEQICNKLTSCKSCSLNLNCQWDQRQQECQALPAHLCGEGWNHVGDACLRINSSRESYDNAKLYCYNLSGNLASLTTSKEVEFVLDEIQKFTQQKVSPWVGLRKINISYWGWEDMSPFTNTSLQWLPGEPNDSGFCAYLERAAVAGLKANPCTSMADGLVCEKPVVSPNQNARPCKKPCSLRTSCANCTSSGMECMWCSSTKRCVDSNAYIISFPYGQCLEWQTATCSPQNCSGLRTCGQCLEQPGCGWCNDPSNTGRGYCIEGSSRGPMKLAGVHNSDVVLDTSLCPKEKNYEWSFIQCPACQCNGHSTCINNNVCEQCKNLTTGRQCQECMPGYYGDPTNGGQCTACTCGGHANVCHLHTGKCFCTTKGIKGDQCQLCDSENRYVGNPLRGTCYYSLLIDYQFTFSLLQEDDRHHTAINFIANPEQSNKNLDISINASNNFNLNITWSVGSTGGTISGEETPIVSKTNIKEYRDSFSYEKFNFRSNPNITFYVYVSNFSWPIKIQIAFSQHNTIMDLVQFFVTFFSCFLSLLLVAAVVWKIKQTCWASRRREQLLRERQQMASRPFASVDVALEVGAEQTDFLRGPLELQFRKQYMECRCCIKGPSSEIRTFSCPLSGKHLYVRRQNGDQ
IRESfinder result
IRESfinder score
0.501644146
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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