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mmu_circLarp1_2657
Basic information of circular RNA
PanCircBase ID:
mmu_circLarp1_2657
mm39_Chr. Position ID:
chr11|57931216|57948214|+
Gene name:
Larp1
Transcript:
ENSMUST00000071487.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
17
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,299,1087,1843,2045,2353,3515,7304,7586,9306,10392,10611,11234,12189,15076,16663,16870
Genomic length:
16998
Exon/intron sizes in nt:
62,66,17,91,25,20,71,60,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:57900373-57931216|chr11:57948214-57949384
Splice length:
2657
Other database IDs:
CIRCpedia: MMU_CIRCpedia_229805, circAtlas: mmu-Larp1_0010
circAtlas: hsa-LARP1_0009, CIRCpedia: HSA_CIRCpedia_50882
Human Ortholog IDs:
Mature spliced Sequence:
AACCTTCTGCTCCAGCCAAGGTGGTGAGGGCAGCTGCTCCTAAACCGCGTAAGGGCAGCAAGGTTGGTGATTTTGGAGATGCAGTCAACTGGCCTACACCTGGAGAGATAGCCCACAAAAGTGTGCAGCCACAGTCCCACAAGCCTCAGCCTGCTCGTAAGTTGCCACCTAAGAAGGACATGAAGGAGCAAGAGAAAGGAGATGGAAGTGATAGTAAGGAGAGCCCAAAAACAAAGTCGGATGAATCGGGGGAGGAAAAGAATGGGGATGAGGACTGCCAGCGAGGCGGGCAGAAGAAGAAAGGTAACAAACACAAGTGGGTTCCATTGCAAATAGACATGAAGCCCGAAGTACCCAGAGAGAAATTGGCCTCCCGTCCCACTCGCCCACAGGAACCAAGACATACACCCGCTGTCCGTGGGGAGATGAAAGGATCTGAACCTGCCACCTACATGCCTGTATCTGTGGCCCCACCCACCCCAGCCTGGCAACCAGAGACCAAAGTGGAGCCTGCCTGGCACGACCAGGATGAGACATCGAGTGTGAAGAGTGATGGGGCTGGTGGGGCTCGGGCTTCCTTCCGTGGCCGTGGACGGGGGCGTGGTCGTGGACGGGGCCGTGGACGGGGTGGCACTCGAACCCACTTTGACTACCAGTTTGGCTACCGAAAGTTTGATGGTACAGAGGGGCCCCGCACCCACAAGTATATGAACAACATCACTTACTACTTTGACAATGTCAGCAGCAATGAGATTTACAGTATGGACCAGGAGCTGCTCAAGGATTATATCAAACGCCAGATTGAATATTACTTCAGCGTGGACAATTTAGAGCGAGACTTCTTCCTGAGACGGAAAATGGATGCTGATGGCTTCCTTCCCATCACCCTTATTGCTTCCTTTCACCGTGTACAGGCCCTAACCACTGACATTTCACTCATCTTTGCGGCTCTAAAGGACAGCAAGGTGGTAGAGATGGTTGAGGAGAAAGTCCGCAGGAGGGAAGAACCTGAAAAGTGGCCACTGCCTGGACCCCCAATAGTGGATTATTCACAAACTGATTTTTCTCAGCTTCTCAACTGCCCAGAGTTTGTTCCCCGCCAGCACTACCAGAAAGAGACAGAGTCGGCACCTGGCTCTCCCCGTGCAGTCACCCCAGTGCCAACAAAAACAGAGGAGGTCAGCAACCTGAAGACCCTTCCCAAGGGCCTGTCTGCCAGCCTCCCAGATCTGGATTCTGAGAGCTGGATTGAAGTGAAGAAAAGGCCTCGACCCTCACCAGCACGCCCCAAGAAGCCAGAGGAGCCCAGGTTCTCCCACCCAACTGCTCTGCCTCAGCAGCTTCCCTCCCAGCAGCTGATGTCTAAGGATCAGGATGAGCAAGAAGAACTAGACTTTCTGTTTGACGAGGAGATGGAGCAGATGGATGGGCGGAAGAATACCTTCACTGCCTGGTCTGAAGAGGACTCTGACTATGAAATTGATGACCGGGATGTCAATAAGATCCTCATCGTCACTCAAACACCACCTTACATGCGTCGCCACCCTGGAGGAGACCGTACAGGCAACCACACTTCGCGTGCCAAGATGAGTGCTGAACTGGCCAAGGTCATTAATGATGGACTCTTCTACTATGAACAAGACCTGTGGACTGAGAAGTTTGAGCCTGAGTATTCACAGATCAAGCAAGAAGTGGAAAACTTCAAGAAAGTGAATATGATTAGTCGGGAACAGTTTGACACTCTGACCCCTGAGCCCCCTGTGGATCCTAACCAGGAGGTTCCTCCTGGGCCACCTCGGTTCCAACAAGTTCCTACTGATGCCCTGGCCAACAAGCTGTTTGGTGCTCCCGAGCCATCTACCATTGCCCGTTCTCTACCAACCACTGTCCCAGAGTCTCCAAACTACCGAAATGCCAGGACTCCCCGCACACCCCGGACCCCCCAGCTCAAAGACTCTAGTCAGACACCACGGTTTTACCCTGTGGTGAAAGAAGGACGGACCCTAGATGCCAAGATGCCTCGAAAAAGAAAGACAAGGCACAGCTCGAACCCCCCCTTGGAAAGTCATGTGGGCTGGGTGATGGATTCTCGGGAGCACAGGCCCAGGACTGCTTCTATTAGCTCCAGTCCTTCAGAGGGAACACCTGCAGTCGGCAGCTATGGCTGTACCCCTCAGTCACTGCCCAAGTTCCAGCATCCTTCCCATGAGCTGCTCAAGGAAAATGGCTTCACACAACACGTCTACCACAAGTATCGGAGGCGCTGCCTTAATGAGCGGAAGCGCTTGGGCATTGGCCAGTCTCAGGAGATGAACACCCTCTTCCGCTTTTGGTCCTTCTTCCTCCGAGATCACTTCAATAAAAAGATGTATGAAGAGTTCAAGCAGCTCGCACTGGAGGATGCCAAAGAAGGCTACAGGTACGGTTTGGAGTGCCTTTTTCGATACTACAGTTATGGTCTAGAGAAAAAGTTCCGGCTGGACATATTCAAGGATTTCCAGGAGGAGACAGTGAAGGACTATGAGGCTGGCCAGCTCTATGGATTGGAGAAGTTCTGGGCCTTCTTGAAATACTCCAAAGCCAAAAATTTGGACATTGACCCCAAACTGCAAGAATACCTCGGCAAATTCCGCCGCTTAGAAGACTTCCGAGTGGAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACATTGACCCCAAACTGC
59.4
AGGCCAGTTGACTGCATCTC
60.04
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCAAGAATACCTCGGCA
59.39
AGGCCAGTTGACTGCATCTC
60.04
147
PCR template sequence:
GGCCTTCTTGAAATACTCCAAAGCCAAAAATTTGGACATTGACCCCAAACTGCAAGAATACCTCGGCAAATTCCGCCGCTTAGAAGACTTCCGAGTGGACAACCTTCTGCTCCAGCCAAGGTGGTGAGGGCAGCTGCTCCTAAACCGCGTAAGGGCAGCAAGGTTGGTGATTTTGGAGATGCAGTCAACTGGCCTACACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(2), mmu-miR-9-5p(1), mmu-miR-134-5p(1), mmu-miR-34c-5p(1), mmu-miR-223-3p(1), mmu-miR-216a-5p(1), mmu-miR-217-5p(1), mmu-miR-196a-5p(1), mmu-miR-709(1), mmu-miR-326-3p(1), mmu-miR-495-3p(1), mmu-miR-22-3p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-484(1), mmu-miR-540-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCCGAGTGGACAACCTTCTGCTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLARP1_2657_ORF_1
0.9713
0.368250592
0.99999989
2505
ORF sequence:
ATGAAGGAGCAAGAGAAAGGAGATGGAAGTGATAGTAAGGAGAGCCCAAAAACAAAGTCGGATGAATCGGGGGAGGAAAAGAATGGGGATGAGGACTGCCAGCGAGGCGGGCAGAAGAAGAAAGGTAACAAACACAAGTGGGTTCCATTGCAAATAGACATGAAGCCCGAAGTACCCAGAGAGAAATTGGCCTCCCGTCCCACTCGCCCACAGGAACCAAGACATACACCCGCTGTCCGTGGGGAGATGAAAGGATCTGAACCTGCCACCTACATGCCTGTATCTGTGGCCCCACCCACCCCAGCCTGGCAACCAGAGACCAAAGTGGAGCCTGCCTGGCACGACCAGGATGAGACATCGAGTGTGAAGAGTGATGGGGCTGGTGGGGCTCGGGCTTCCTTCCGTGGCCGTGGACGGGGGCGTGGTCGTGGACGGGGCCGTGGACGGGGTGGCACTCGAACCCACTTTGACTACCAGTTTGGCTACCGAAAGTTTGATGGTACAGAGGGGCCCCGCACCCACAAGTATATGAACAACATCACTTACTACTTTGACAATGTCAGCAGCAATGAGATTTACAGTATGGACCAGGAGCTGCTCAAGGATTATATCAAACGCCAGATTGAATATTACTTCAGCGTGGACAATTTAGAGCGAGACTTCTTCCTGAGACGGAAAATGGATGCTGATGGCTTCCTTCCCATCACCCTTATTGCTTCCTTTCACCGTGTACAGGCCCTAACCACTGACATTTCACTCATCTTTGCGGCTCTAAAGGACAGCAAGGTGGTAGAGATGGTTGAGGAGAAAGTCCGCAGGAGGGAAGAACCTGAAAAGTGGCCACTGCCTGGACCCCCAATAGTGGATTATTCACAAACTGATTTTTCTCAGCTTCTCAACTGCCCAGAGTTTGTTCCCCGCCAGCACTACCAGAAAGAGACAGAGTCGGCACCTGGCTCTCCCCGTGCAGTCACCCCAGTGCCAACAAAAACAGAGGAGGTCAGCAACCTGAAGACCCTTCCCAAGGGCCTGTCTGCCAGCCTCCCAGATCTGGATTCTGAGAGCTGGATTGAAGTGAAGAAAAGGCCTCGACCCTCACCAGCACGCCCCAAGAAGCCAGAGGAGCCCAGGTTCTCCCACCCAACTGCTCTGCCTCAGCAGCTTCCCTCCCAGCAGCTGATGTCTAAGGATCAGGATGAGCAAGAAGAACTAGACTTTCTGTTTGACGAGGAGATGGAGCAGATGGATGGGCGGAAGAATACCTTCACTGCCTGGTCTGAAGAGGACTCTGACTATGAAATTGATGACCGGGATGTCAATAAGATCCTCATCGTCACTCAAACACCACCTTACATGCGTCGCCACCCTGGAGGAGACCGTACAGGCAACCACACTTCGCGTGCCAAGATGAGTGCTGAACTGGCCAAGGTCATTAATGATGGACTCTTCTACTATGAACAAGACCTGTGGACTGAGAAGTTTGAGCCTGAGTATTCACAGATCAAGCAAGAAGTGGAAAACTTCAAGAAAGTGAATATGATTAGTCGGGAACAGTTTGACACTCTGACCCCTGAGCCCCCTGTGGATCCTAACCAGGAGGTTCCTCCTGGGCCACCTCGGTTCCAACAAGTTCCTACTGATGCCCTGGCCAACAAGCTGTTTGGTGCTCCCGAGCCATCTACCATTGCCCGTTCTCTACCAACCACTGTCCCAGAGTCTCCAAACTACCGAAATGCCAGGACTCCCCGCACACCCCGGACCCCCCAGCTCAAAGACTCTAGTCAGACACCACGGTTTTACCCTGTGGTGAAAGAAGGACGGACCCTAGATGCCAAGATGCCTCGAAAAAGAAAGACAAGGCACAGCTCGAACCCCCCCTTGGAAAGTCATGTGGGCTGGGTGATGGATTCTCGGGAGCACAGGCCCAGGACTGCTTCTATTAGCTCCAGTCCTTCAGAGGGAACACCTGCAGTCGGCAGCTATGGCTGTACCCCTCAGTCACTGCCCAAGTTCCAGCATCCTTCCCATGAGCTGCTCAAGGAAAATGGCTTCACACAACACGTCTACCACAAGTATCGGAGGCGCTGCCTTAATGAGCGGAAGCGCTTGGGCATTGGCCAGTCTCAGGAGATGAACACCCTCTTCCGCTTTTGGTCCTTCTTCCTCCGAGATCACTTCAATAAAAAGATGTATGAAGAGTTCAAGCAGCTCGCACTGGAGGATGCCAAAGAAGGCTACAGGTACGGTTTGGAGTGCCTTTTTCGATACTACAGTTATGGTCTAGAGAAAAAGTTCCGGCTGGACATATTCAAGGATTTCCAGGAGGAGACAGTGAAGGACTATGAGGCTGGCCAGCTCTATGGATTGGAGAAGTTCTGGGCCTTCTTGAAATACTCCAAAGCCAAAAATTTGGACATTGACCCCAAACTGCAAGAATACCTCGGCAAATTCCGCCGCTTAGAAGACTTCCGAGTGGACAACCTTCTGCTCCAGCCAAGGTGGTGA
Peptide sequence:
MKEQEKGDGSDSKESPKTKSDESGEEKNGDEDCQRGGQKKKGNKHKWVPLQIDMKPEVPREKLASRPTRPQEPRHTPAVRGEMKGSEPATYMPVSVAPPTPAWQPETKVEPAWHDQDETSSVKSDGAGGARASFRGRGRGRGRGRGRGRGGTRTHFDYQFGYRKFDGTEGPRTHKYMNNITYYFDNVSSNEIYSMDQELLKDYIKRQIEYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALKDSKVVEMVEEKVRRREEPEKWPLPGPPIVDYSQTDFSQLLNCPEFVPRQHYQKETESAPGSPRAVTPVPTKTEEVSNLKTLPKGLSASLPDLDSESWIEVKKRPRPSPARPKKPEEPRFSHPTALPQQLPSQQLMSKDQDEQEELDFLFDEEMEQMDGRKNTFTAWSEEDSDYEIDDRDVNKILIVTQTPPYMRRHPGGDRTGNHTSRAKMSAELAKVINDGLFYYEQDLWTEKFEPEYSQIKQEVENFKKVNMISREQFDTLTPEPPVDPNQEVPPGPPRFQQVPTDALANKLFGAPEPSTIARSLPTTVPESPNYRNARTPRTPRTPQLKDSSQTPRFYPVVKEGRTLDAKMPRKRKTRHSSNPPLESHVGWVMDSREHRPRTASISSSPSEGTPAVGSYGCTPQSLPKFQHPSHELLKENGFTQHVYHKYRRRCLNERKRLGIGQSQEMNTLFRFWSFFLRDHFNKKMYEEFKQLALEDAKEGYRYGLECLFRYYSYGLEKKFRLDIFKDFQEETVKDYEAGQLYGLEKFWAFLKYSKAKNLDIDPKLQEYLGKFRRLEDFRVDNLLLQPRW
IRESfinder result
IRESfinder score
0.455331361
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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