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mmu_circMad1l1_378
Basic information of circular RNA
PanCircBase ID:
mmu_circMad1l1_378
mm39_Chr. Position ID:
chr5|140091269|140129815|-
Gene name:
Mad1l1
Transcript:
ENSMUST00000031534.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,14,13,12
Exon/intron offsets:
0,11722,27254,38405
Genomic length:
38546
Exon/intron sizes in nt:
91,89,57,141
Flanking exon/introns:
chr5:140074592-140091269|chr5:140129815-140179668
Splice length:
378
Other database IDs:
circAtlas: mmu-Mad1l1_0025
circBase: hsa_circ_0001670, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_97084
Human Ortholog IDs:
Mature spliced Sequence:
GAGAGAGATGGCATGCGTGCCATCCTGGGATCCTACGACAGTGAGCTGACCCAAACTGAGTACTCAACCCAGCTGACACAGCGCCTGTGGGAGGCCGAGGACATGGTTCAGAAGGTACATGCCCACAGCTCGGAGATGGAGGCTCAGCTGTCTCAGGCCCTGGAGGAGCTTGGGGTTCAGAAGCAGAGAGCTGACACGCTGGAGATGGAGTTGAAGATGCTGAAGGCCCAGACAAGCTCAGCTGAATCTAGCTTCTCATTCTGCAAAGAGGAGGTGGATGCACTCAGGTTGAAGGTGGAGGAGCTGGAGGGTGAGCGGAGCCGTCTGGAACAGGAAAAGCAGGTGCTGGAGATGCAGATGGAGAAACTAACCCTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTCAGGTTGAAGGTGGA
59.89
CTGTGTCAGCTGGGTTGAGT
59.89
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTCAGGTTGAAGGTGGA
59.89
GGTCAGCTCACTGTCGTAGG
59.83
150
PCR template sequence:
TGCACTCAGGTTGAAGGTGGAGGAGCTGGAGGGTGAGCGGAGCCGTCTGGAACAGGAAAAGCAGGTGCTGGAGATGCAGATGGAGAAACTAACCCTACAGGAGAGAGATGGCATGCGTGCCATCCTGGGATCCTACGACAGTGAGCTGACCCAAACTGAGTACTCAACCCAGCTGACACAGCGCCTGTGGGAGGCCGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTAACCCTACAGGAGAGAGATGGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAD1L1_378_ORF_1
1.2063
0.538274468
0.989566202
744
ORF sequence:
ATGCGTGCCATCCTGGGATCCTACGACAGTGAGCTGACCCAAACTGAGTACTCAACCCAGCTGACACAGCGCCTGTGGGAGGCCGAGGACATGGTTCAGAAGGTACATGCCCACAGCTCGGAGATGGAGGCTCAGCTGTCTCAGGCCCTGGAGGAGCTTGGGGTTCAGAAGCAGAGAGCTGACACGCTGGAGATGGAGTTGAAGATGCTGAAGGCCCAGACAAGCTCAGCTGAATCTAGCTTCTCATTCTGCAAAGAGGAGGTGGATGCACTCAGGTTGAAGGTGGAGGAGCTGGAGGGTGAGCGGAGCCGTCTGGAACAGGAAAAGCAGGTGCTGGAGATGCAGATGGAGAAACTAACCCTACAGGAGAGAGATGGCATGCGTGCCATCCTGGGATCCTACGACAGTGAGCTGACCCAAACTGAGTACTCAACCCAGCTGACACAGCGCCTGTGGGAGGCCGAGGACATGGTTCAGAAGGTACATGCCCACAGCTCGGAGATGGAGGCTCAGCTGTCTCAGGCCCTGGAGGAGCTTGGGGTTCAGAAGCAGAGAGCTGACACGCTGGAGATGGAGTTGAAGATGCTGAAGGCCCAGACAAGCTCAGCTGAATCTAGCTTCTCATTCTGCAAAGAGGAGGTGGATGCACTCAGGTTGAAGGTGGAGGAGCTGGAGGGTGAGCGGAGCCGTCTGGAACAGGAAAAGCAGGTGCTGGAGATGCAGATGGAGAAACTAACCCTACAG
Peptide sequence:
MRAILGSYDSELTQTEYSTQLTQRLWEAEDMVQKVHAHSSEMEAQLSQALEELGVQKQRADTLEMELKMLKAQTSSAESSFSFCKEEVDALRLKVEELEGERSRLEQEKQVLEMQMEKLTLQERDGMRAILGSYDSELTQTEYSTQLTQRLWEAEDMVQKVHAHSSEMEAQLSQALEELGVQKQRADTLEMELKMLKAQTSSAESSFSFCKEEVDALRLKVEELEGERSRLEQEKQVLEMQMEKLTLQ
IRESfinder result
IRESfinder score
0.209135062
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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