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mmu_circMadd_1968
Basic information of circular RNA
PanCircBase ID:
mmu_circMadd_1968
mm39_Chr. Position ID:
chr2|90993843|91007454|-
Gene name:
Madd
Transcript:
ENSMUST00000111373.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1867,3047,3544,4025,4312,6202,6518,7070,9614,12144,12657,13307
Genomic length:
13611
Exon/intron sizes in nt:
1,03,10,21,40,12,11,95,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:90993258-90993843|chr2:91007454-91008244
Splice length:
1968
Other database IDs:
circAtlas: mmu-Madd_0021
CIRCpedia: HSA_CIRCpedia_365456
Human Ortholog IDs:
Mature spliced Sequence:
GGACACCATGTGGCGAATCTTTACTGGATCACTGCTAGTGGAGGAGAAGTCCAGTGCCCTTCTGCAAGACCTTCGAGAGATTGAGGCCTGGATCTATCGGTTGCTACGTTCCCCAGTGCCTGTCTCTGGGCAGAAGCGAGTGGACATTGAGGTCCTGCCCCAGGAACTCCAGCAGGCCCTGACATTTGCTCTTCCAGATCCATCTCGATTCACCCTAGTAGATTTCCCTCTTCACCTTCCCTTGGAACTTCTGGGTGTAGATGCTTGTCTTCAGGTGCTAACCTGCATCCTGTTGGAGCACAAGGTGGTGCTGCAGTCTCGAGACTACAATGCACTCTCCATGTCTGTGATGGCGTTCGTGGCAATGATCTACCCCCTGGAGTACATGTTCCCGGTCATCCCGCTGCTTCCCACCTGCATGGCCTCGGCAGAGCAGCTACTCTTGGCTCCAACCCCATACATCATTGGAGTTCCTGCCAGCTTCTTCCTCTACAAGCTAGATTTCAAAATGCCCGATGACGTGTGGCTAGTGGATCTGGACAGCAATAGGGTGATTGCCCCCACCAATGCAGAAGTGCTACCCATCCTGCCAGAACCAGAATCATTAGAGCTGAAAAAACACTTAAAGCAGGCCTTAGCCAGCATGAGTCTCAACACCCAGCCCATTCTTAACCTGGAGAAATTCCACGAGGGCCAGGAGATCCCGCTTCTCTTGGGAAGGCCATCTAATGACCTTCAGTCCACACCTTCCACTGAATTCAACCCGCTCATTTATGGCAATGATGTAGATTCAGTCGACGTTGCAACGAGAGTGGCCATGGTACGTTTCTTCAACTCTGCTAACGTGCTGCAGGGCTTTCAGATGCACACACGTACCCTGCGACTCTTCCCCCGGCCTGTGGTAGCTTTCCAAGCTGGCTCCTTTCTGGCCTCACGTCCCCGGCAGACTCCCTTTGCTGAGAAACTGGCCAGGACCCAAGCTGTGGAGTATTTTGGAGAATGGATCCTGAACCCTTCTAACTATGCCTTCCAGCGGATTCACAACAATACGTTTGATCCGGCCCTTATTGGTGACAAGCCAAAGTGGTACGCTCACCAGCTGCAGCCCATCCATTATCGAGTCTATGATGGCAACTCTCAGCTGGCCGAGGCCCTGAGTGTGCCCCCGGAGCGCGATTCTGACTCCGACCCGACGGAGGACAGTGGCAGTGATAGTCAGGATTATGATGACTCAAGCTCTTCTTACTCCTCCCTTGGGGACTTTGTCAGTGAAATGATGAAATGTGACATCAATGGAGACACTCCCAATGTGGATCCTCTGACCCATGCAGCCCTGGGAGATGCCAGTGAAGTGGAGATTGACGAGCTGCAGCCCCAGAAGGAGGGAGAGGAACCCGGCCCAGACAGTGAGAACTCTCAGGAAAACCCTCCGCTGCGCTCCAGCTCCAGCACCACGGCCAGCAGCAGCCCCAGCACCGTTGTCCACAGTGCCCACTCTGTACCTGCTGACTCTACAGAGATGGGAGATAAGGCCACAGCAGGCATCTCCAAGCCCCTCCCTCCCGTGCCTCCCAGCATTTGCAAATCTACTGTGGACAGGAGACAGACAGAGACTGGAGAGGGGGCTCAAAAGCTGCTGCGGCCCAACAGCTTGAAGCTGGCAAGTGACTCAGACGCAGAGTCAGACTCGAGAGCAAGCTCTCCCAACTCCACTGTCTCTAACAACAGCACCGAGGGCTTCGGGGGCATCATGTCTTTTGCTAGCAGCCTGTATCGGAACCATAGTACAAGCTTCAGTCTTTCAAACCTCACACTGCCCACCAAAGGTGCCCGCGAGAAGACGACACCATTCCCCAGCCTGAAAGGAAATAGGAGGGCCTTAGTGGACCAGAAGTCATCTGTCATTAAACACAGCCCAACCGTGAAAAGAGAACCTTCATCCCCACAGGGCCGGTCGAGCAACTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACAGCCCAACCGTGAAAAG
59.97
TCCAGGCCTCAATCTCTCGA
60.03
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCCCAACCGTGAAAAGA
60.11
TCCAGGCCTCAATCTCTCGA
60.03
150
PCR template sequence:
ATAGGAGGGCCTTAGTGGACCAGAAGTCATCTGTCATTAAACACAGCCCAACCGTGAAAAGAGAACCTTCATCCCCACAGGGCCGGTCGAGCAACTCTAGGGACACCATGTGGCGAATCTTTACTGGATCACTGCTAGTGGAGGAGAAGTCCAGTGCCCTTCTGCAAGACCTTCGAGAGATTGAGGCCTGGATCTATCGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(2), mmu-miR-34c-5p(1), mmu-miR-122-5p(1), mmu-miR-29a-3p(1), mmu-miR-33-5p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-214-3p(1), mmu-miR-503-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-431-5p(1), mmu-miR-666-5p(1), mmu-miR-680(1), mmu-miR-673-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGAGCAACTCTAGGGACACCATGTGG
siRNA sets
ATGGTGTCCCTAGAGTTGC, TGGTGTCCCTAGAGTTGCT, CATGGTGTCCCTAGAGTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMADD_1968_ORF_1
1.0726
0.348290911
1
3927
ORF sequence:
ATGTGGCGAATCTTTACTGGATCACTGCTAGTGGAGGAGAAGTCCAGTGCCCTTCTGCAAGACCTTCGAGAGATTGAGGCCTGGATCTATCGGTTGCTACGTTCCCCAGTGCCTGTCTCTGGGCAGAAGCGAGTGGACATTGAGGTCCTGCCCCAGGAACTCCAGCAGGCCCTGACATTTGCTCTTCCAGATCCATCTCGATTCACCCTAGTAGATTTCCCTCTTCACCTTCCCTTGGAACTTCTGGGTGTAGATGCTTGTCTTCAGGTGCTAACCTGCATCCTGTTGGAGCACAAGGTGGTGCTGCAGTCTCGAGACTACAATGCACTCTCCATGTCTGTGATGGCGTTCGTGGCAATGATCTACCCCCTGGAGTACATGTTCCCGGTCATCCCGCTGCTTCCCACCTGCATGGCCTCGGCAGAGCAGCTACTCTTGGCTCCAACCCCATACATCATTGGAGTTCCTGCCAGCTTCTTCCTCTACAAGCTAGATTTCAAAATGCCCGATGACGTGTGGCTAGTGGATCTGGACAGCAATAGGGTGATTGCCCCCACCAATGCAGAAGTGCTACCCATCCTGCCAGAACCAGAATCATTAGAGCTGAAAAAACACTTAAAGCAGGCCTTAGCCAGCATGAGTCTCAACACCCAGCCCATTCTTAACCTGGAGAAATTCCACGAGGGCCAGGAGATCCCGCTTCTCTTGGGAAGGCCATCTAATGACCTTCAGTCCACACCTTCCACTGAATTCAACCCGCTCATTTATGGCAATGATGTAGATTCAGTCGACGTTGCAACGAGAGTGGCCATGGTACGTTTCTTCAACTCTGCTAACGTGCTGCAGGGCTTTCAGATGCACACACGTACCCTGCGACTCTTCCCCCGGCCTGTGGTAGCTTTCCAAGCTGGCTCCTTTCTGGCCTCACGTCCCCGGCAGACTCCCTTTGCTGAGAAACTGGCCAGGACCCAAGCTGTGGAGTATTTTGGAGAATGGATCCTGAACCCTTCTAACTATGCCTTCCAGCGGATTCACAACAATACGTTTGATCCGGCCCTTATTGGTGACAAGCCAAAGTGGTACGCTCACCAGCTGCAGCCCATCCATTATCGAGTCTATGATGGCAACTCTCAGCTGGCCGAGGCCCTGAGTGTGCCCCCGGAGCGCGATTCTGACTCCGACCCGACGGAGGACAGTGGCAGTGATAGTCAGGATTATGATGACTCAAGCTCTTCTTACTCCTCCCTTGGGGACTTTGTCAGTGAAATGATGAAATGTGACATCAATGGAGACACTCCCAATGTGGATCCTCTGACCCATGCAGCCCTGGGAGATGCCAGTGAAGTGGAGATTGACGAGCTGCAGCCCCAGAAGGAGGGAGAGGAACCCGGCCCAGACAGTGAGAACTCTCAGGAAAACCCTCCGCTGCGCTCCAGCTCCAGCACCACGGCCAGCAGCAGCCCCAGCACCGTTGTCCACAGTGCCCACTCTGTACCTGCTGACTCTACAGAGATGGGAGATAAGGCCACAGCAGGCATCTCCAAGCCCCTCCCTCCCGTGCCTCCCAGCATTTGCAAATCTACTGTGGACAGGAGACAGACAGAGACTGGAGAGGGGGCTCAAAAGCTGCTGCGGCCCAACAGCTTGAAGCTGGCAAGTGACTCAGACGCAGAGTCAGACTCGAGAGCAAGCTCTCCCAACTCCACTGTCTCTAACAACAGCACCGAGGGCTTCGGGGGCATCATGTCTTTTGCTAGCAGCCTGTATCGGAACCATAGTACAAGCTTCAGTCTTTCAAACCTCACACTGCCCACCAAAGGTGCCCGCGAGAAGACGACACCATTCCCCAGCCTGAAAGGAAATAGGAGGGCCTTAGTGGACCAGAAGTCATCTGTCATTAAACACAGCCCAACCGTGAAAAGAGAACCTTCATCCCCACAGGGCCGGTCGAGCAACTCTAGGGACACCATGTGGCGAATCTTTACTGGATCACTGCTAGTGGAGGAGAAGTCCAGTGCCCTTCTGCAAGACCTTCGAGAGATTGAGGCCTGGATCTATCGGTTGCTACGTTCCCCAGTGCCTGTCTCTGGGCAGAAGCGAGTGGACATTGAGGTCCTGCCCCAGGAACTCCAGCAGGCCCTGACATTTGCTCTTCCAGATCCATCTCGATTCACCCTAGTAGATTTCCCTCTTCACCTTCCCTTGGAACTTCTGGGTGTAGATGCTTGTCTTCAGGTGCTAACCTGCATCCTGTTGGAGCACAAGGTGGTGCTGCAGTCTCGAGACTACAATGCACTCTCCATGTCTGTGATGGCGTTCGTGGCAATGATCTACCCCCTGGAGTACATGTTCCCGGTCATCCCGCTGCTTCCCACCTGCATGGCCTCGGCAGAGCAGCTACTCTTGGCTCCAACCCCATACATCATTGGAGTTCCTGCCAGCTTCTTCCTCTACAAGCTAGATTTCAAAATGCCCGATGACGTGTGGCTAGTGGATCTGGACAGCAATAGGGTGATTGCCCCCACCAATGCAGAAGTGCTACCCATCCTGCCAGAACCAGAATCATTAGAGCTGAAAAAACACTTAAAGCAGGCCTTAGCCAGCATGAGTCTCAACACCCAGCCCATTCTTAACCTGGAGAAATTCCACGAGGGCCAGGAGATCCCGCTTCTCTTGGGAAGGCCATCTAATGACCTTCAGTCCACACCTTCCACTGAATTCAACCCGCTCATTTATGGCAATGATGTAGATTCAGTCGACGTTGCAACGAGAGTGGCCATGGTACGTTTCTTCAACTCTGCTAACGTGCTGCAGGGCTTTCAGATGCACACACGTACCCTGCGACTCTTCCCCCGGCCTGTGGTAGCTTTCCAAGCTGGCTCCTTTCTGGCCTCACGTCCCCGGCAGACTCCCTTTGCTGAGAAACTGGCCAGGACCCAAGCTGTGGAGTATTTTGGAGAATGGATCCTGAACCCTTCTAACTATGCCTTCCAGCGGATTCACAACAATACGTTTGATCCGGCCCTTATTGGTGACAAGCCAAAGTGGTACGCTCACCAGCTGCAGCCCATCCATTATCGAGTCTATGATGGCAACTCTCAGCTGGCCGAGGCCCTGAGTGTGCCCCCGGAGCGCGATTCTGACTCCGACCCGACGGAGGACAGTGGCAGTGATAGTCAGGATTATGATGACTCAAGCTCTTCTTACTCCTCCCTTGGGGACTTTGTCAGTGAAATGATGAAATGTGACATCAATGGAGACACTCCCAATGTGGATCCTCTGACCCATGCAGCCCTGGGAGATGCCAGTGAAGTGGAGATTGACGAGCTGCAGCCCCAGAAGGAGGGAGAGGAACCCGGCCCAGACAGTGAGAACTCTCAGGAAAACCCTCCGCTGCGCTCCAGCTCCAGCACCACGGCCAGCAGCAGCCCCAGCACCGTTGTCCACAGTGCCCACTCTGTACCTGCTGACTCTACAGAGATGGGAGATAAGGCCACAGCAGGCATCTCCAAGCCCCTCCCTCCCGTGCCTCCCAGCATTTGCAAATCTACTGTGGACAGGAGACAGACAGAGACTGGAGAGGGGGCTCAAAAGCTGCTGCGGCCCAACAGCTTGAAGCTGGCAAGTGACTCAGACGCAGAGTCAGACTCGAGAGCAAGCTCTCCCAACTCCACTGTCTCTAACAACAGCACCGAGGGCTTCGGGGGCATCATGTCTTTTGCTAGCAGCCTGTATCGGAACCATAGTACAAGCTTCAGTCTTTCAAACCTCACACTGCCCACCAAAGGTGCCCGCGAGAAGACGACACCATTCCCCAGCCTGAAAGGAAATAGGAGGGCCTTAGTGGACCAGAAGTCATCTGTCATTAAACACAGCCCAACCGTGAAAAGAGAACCTTCATCCCCACAGGGCCGGTCGAGCAACTCT
Peptide sequence:
MWRIFTGSLLVEEKSSALLQDLREIEAWIYRLLRSPVPVSGQKRVDIEVLPQELQQALTFALPDPSRFTLVDFPLHLPLELLGVDACLQVLTCILLEHKVVLQSRDYNALSMSVMAFVAMIYPLEYMFPVIPLLPTCMASAEQLLLAPTPYIIGVPASFFLYKLDFKMPDDVWLVDLDSNRVIAPTNAEVLPILPEPESLELKKHLKQALASMSLNTQPILNLEKFHEGQEIPLLLGRPSNDLQSTPSTEFNPLIYGNDVDSVDVATRVAMVRFFNSANVLQGFQMHTRTLRLFPRPVVAFQAGSFLASRPRQTPFAEKLARTQAVEYFGEWILNPSNYAFQRIHNNTFDPALIGDKPKWYAHQLQPIHYRVYDGNSQLAEALSVPPERDSDSDPTEDSGSDSQDYDDSSSSYSSLGDFVSEMMKCDINGDTPNVDPLTHAALGDASEVEIDELQPQKEGEEPGPDSENSQENPPLRSSSSTTASSSPSTVVHSAHSVPADSTEMGDKATAGISKPLPPVPPSICKSTVDRRQTETGEGAQKLLRPNSLKLASDSDAESDSRASSPNSTVSNNSTEGFGGIMSFASSLYRNHSTSFSLSNLTLPTKGAREKTTPFPSLKGNRRALVDQKSSVIKHSPTVKREPSSPQGRSSNSRDTMWRIFTGSLLVEEKSSALLQDLREIEAWIYRLLRSPVPVSGQKRVDIEVLPQELQQALTFALPDPSRFTLVDFPLHLPLELLGVDACLQVLTCILLEHKVVLQSRDYNALSMSVMAFVAMIYPLEYMFPVIPLLPTCMASAEQLLLAPTPYIIGVPASFFLYKLDFKMPDDVWLVDLDSNRVIAPTNAEVLPILPEPESLELKKHLKQALASMSLNTQPILNLEKFHEGQEIPLLLGRPSNDLQSTPSTEFNPLIYGNDVDSVDVATRVAMVRFFNSANVLQGFQMHTRTLRLFPRPVVAFQAGSFLASRPRQTPFAEKLARTQAVEYFGEWILNPSNYAFQRIHNNTFDPALIGDKPKWYAHQLQPIHYRVYDGNSQLAEALSVPPERDSDSDPTEDSGSDSQDYDDSSSSYSSLGDFVSEMMKCDINGDTPNVDPLTHAALGDASEVEIDELQPQKEGEEPGPDSENSQENPPLRSSSSTTASSSPSTVVHSAHSVPADSTEMGDKATAGISKPLPPVPPSICKSTVDRRQTETGEGAQKLLRPNSLKLASDSDAESDSRASSPNSTVSNNSTEGFGGIMSFASSLYRNHSTSFSLSNLTLPTKGAREKTTPFPSLKGNRRALVDQKSSVIKHSPTVKREPSSPQGRSSNS
IRESfinder result
IRESfinder score
0.510138694
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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