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mmu_circEp400_1068
Basic information of circular RNA
PanCircBase ID:
mmu_circEp400_1068
mm39_Chr. Position ID:
chr5|110881584|110889926|-
Gene name:
Ep400
Transcript:
ENSMUST00000041558.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,1631,5577,6463,8251
Genomic length:
8342
Exon/intron sizes in nt:
186,297,386,108,91
Flanking exon/introns:
chr5:110877829-110881584|chr5:110889926-110903262
Splice length:
1068
Other database IDs:
CIRCpedia: MMU_CIRCpedia_2982, circAtlas: mmu-Ep400_0019
Human Ortholog IDs:
Mature spliced Sequence:
CACCAATCCCTGACTGGGAGCCTAGTGGTGGGGCCTGGCAGTGCCACAGAAGCCGACCCCTTTAAGAGGCAACAGGTGATGCCACCCACAGAGCAGTCTAAGAGACCTCGTCTTGAAGTGGGTCATCCAGGGGTAGTTTTCCAGCATCCAGGGGTGAATGCAGGAGTCCCTCTGCAGCAGTTAATGCCAACAGTCCAAGGAGGGATGCCCCCAACTCCTCAGGCCACACAGCTCACTGGACAGAAGCAGAGTCAGCAGCAGTACGACCCTTCCACAGGGCCTCCTGTGCAGAACGCCGCCAGCTTGCATACCCCACCACCACAGCTTCCTGCGAGGCTGCCTCCGGCCAGTGTCCCAGCCACAGCCCTCCCTTCCACCTTACAGTTTTCACAGCAGTCACAGATGGTGGAGGCTTCAACTCAGCTCCAAATCCCTGTGAAGACTCAACAGCTAAATGCCCCCATCCCTGCCCCCCTGCCCAGCCAGCTCCCTGCTCCTTCTTCACAGCCCGCCCAGCCGGCCCTACATGTTCCGATGCCCGGGAAGGCGCAGATGCAGACATCTCAGCTTTCCTCCCAGACCCAGACAGTGGCATCGACCAGGCCCCCCTTGGACTCTGCCCAGCCCTGCCAGCGGTCTCTGCCCACTTCCTCCTCTTCCTCATCCCTTGTACCTGTGAGTGGCTCAGGTCCTGGACCCTCACCTGCTCGTTCTTCACCAGTGAACAGACCCTCTTCTGCTACCAACAAGGCTCTGTCTCCCATCACTTCTCGGTCTCCAGGGGTGGCAGTATCAGCTCCTCCTAAGCCACAGAGTCCTGCTCAGAATGCAGCCTCATCCCAGGACGGTTCTCAGGATAAACTGGCAGAACAAATAACACTGGAAAACCAGATCCATCAGCGAATAGCAGATTTAAGGAAGGAAGGCTTGTGGTCCCTAAGGCGGTTGCCAAAGCTTCAAGAGGCCCCACGCCCGAAATCTCACTGGGACTATTTGCTGGAAGAGATGCAGTGGATGGCCACAGACTTTGCTCAAGAGCGGAGGTGGAAGTTGGCTGCTGCTAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGATGCAGTGGATGGCC
60.11
TTGCCTCTTAAAGGGGTCGG
59.67
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCGAAATCTCACTGGGAC
60.74
TAAAGGGGTCGGCTTCTGTG
59.68
162
PCR template sequence:
ACGCCCGAAATCTCACTGGGACTATTTGCTGGAAGAGATGCAGTGGATGGCCACAGACTTTGCTCAAGAGCGGAGGTGGAAGTTGGCTGCTGCTAAGAAGCACCAATCCCTGACTGGGAGCCTAGTGGTGGGGCCTGGCAGTGCCACAGAAGCCGACCCCTTTAAGAGGCAACAGGTGATGCCACCCACAGAGCAGTCTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-324-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-5101(1), mmu-miR-3061-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTGCTAAGAAGCACCAATCCCTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEP400_1068_ORF_1
1.0168
0.18019989
0.999994898
2058
ORF sequence:
ATGCCACCCACAGAGCAGTCTAAGAGACCTCGTCTTGAAGTGGGTCATCCAGGGGTAGTTTTCCAGCATCCAGGGGTGAATGCAGGAGTCCCTCTGCAGCAGTTAATGCCAACAGTCCAAGGAGGGATGCCCCCAACTCCTCAGGCCACACAGCTCACTGGACAGAAGCAGAGTCAGCAGCAGTACGACCCTTCCACAGGGCCTCCTGTGCAGAACGCCGCCAGCTTGCATACCCCACCACCACAGCTTCCTGCGAGGCTGCCTCCGGCCAGTGTCCCAGCCACAGCCCTCCCTTCCACCTTACAGTTTTCACAGCAGTCACAGATGGTGGAGGCTTCAACTCAGCTCCAAATCCCTGTGAAGACTCAACAGCTAAATGCCCCCATCCCTGCCCCCCTGCCCAGCCAGCTCCCTGCTCCTTCTTCACAGCCCGCCCAGCCGGCCCTACATGTTCCGATGCCCGGGAAGGCGCAGATGCAGACATCTCAGCTTTCCTCCCAGACCCAGACAGTGGCATCGACCAGGCCCCCCTTGGACTCTGCCCAGCCCTGCCAGCGGTCTCTGCCCACTTCCTCCTCTTCCTCATCCCTTGTACCTGTGAGTGGCTCAGGTCCTGGACCCTCACCTGCTCGTTCTTCACCAGTGAACAGACCCTCTTCTGCTACCAACAAGGCTCTGTCTCCCATCACTTCTCGGTCTCCAGGGGTGGCAGTATCAGCTCCTCCTAAGCCACAGAGTCCTGCTCAGAATGCAGCCTCATCCCAGGACGGTTCTCAGGATAAACTGGCAGAACAAATAACACTGGAAAACCAGATCCATCAGCGAATAGCAGATTTAAGGAAGGAAGGCTTGTGGTCCCTAAGGCGGTTGCCAAAGCTTCAAGAGGCCCCACGCCCGAAATCTCACTGGGACTATTTGCTGGAAGAGATGCAGTGGATGGCCACAGACTTTGCTCAAGAGCGGAGGTGGAAGTTGGCTGCTGCTAAGAAGCACCAATCCCTGACTGGGAGCCTAGTGGTGGGGCCTGGCAGTGCCACAGAAGCCGACCCCTTTAAGAGGCAACAGGTGATGCCACCCACAGAGCAGTCTAAGAGACCTCGTCTTGAAGTGGGTCATCCAGGGGTAGTTTTCCAGCATCCAGGGGTGAATGCAGGAGTCCCTCTGCAGCAGTTAATGCCAACAGTCCAAGGAGGGATGCCCCCAACTCCTCAGGCCACACAGCTCACTGGACAGAAGCAGAGTCAGCAGCAGTACGACCCTTCCACAGGGCCTCCTGTGCAGAACGCCGCCAGCTTGCATACCCCACCACCACAGCTTCCTGCGAGGCTGCCTCCGGCCAGTGTCCCAGCCACAGCCCTCCCTTCCACCTTACAGTTTTCACAGCAGTCACAGATGGTGGAGGCTTCAACTCAGCTCCAAATCCCTGTGAAGACTCAACAGCTAAATGCCCCCATCCCTGCCCCCCTGCCCAGCCAGCTCCCTGCTCCTTCTTCACAGCCCGCCCAGCCGGCCCTACATGTTCCGATGCCCGGGAAGGCGCAGATGCAGACATCTCAGCTTTCCTCCCAGACCCAGACAGTGGCATCGACCAGGCCCCCCTTGGACTCTGCCCAGCCCTGCCAGCGGTCTCTGCCCACTTCCTCCTCTTCCTCATCCCTTGTACCTGTGAGTGGCTCAGGTCCTGGACCCTCACCTGCTCGTTCTTCACCAGTGAACAGACCCTCTTCTGCTACCAACAAGGCTCTGTCTCCCATCACTTCTCGGTCTCCAGGGGTGGCAGTATCAGCTCCTCCTAAGCCACAGAGTCCTGCTCAGAATGCAGCCTCATCCCAGGACGGTTCTCAGGATAAACTGGCAGAACAAATAACACTGGAAAACCAGATCCATCAGCGAATAGCAGATTTAAGGAAGGAAGGCTTGTGGTCCCTAAGGCGGTTGCCAAAGCTTCAAGAGGCCCCACGCCCGAAATCTCACTGGGACTATTTGCTGGAAGAGATGCAGTGGATGGCCACAGACTTTGCTCAAGAGCGGAGGTGGAAGTTGGCTGCTGCTAAGAAG
Peptide sequence:
MPPTEQSKRPRLEVGHPGVVFQHPGVNAGVPLQQLMPTVQGGMPPTPQATQLTGQKQSQQQYDPSTGPPVQNAASLHTPPPQLPARLPPASVPATALPSTLQFSQQSQMVEASTQLQIPVKTQQLNAPIPAPLPSQLPAPSSQPAQPALHVPMPGKAQMQTSQLSSQTQTVASTRPPLDSAQPCQRSLPTSSSSSSLVPVSGSGPGPSPARSSPVNRPSSATNKALSPITSRSPGVAVSAPPKPQSPAQNAASSQDGSQDKLAEQITLENQIHQRIADLRKEGLWSLRRLPKLQEAPRPKSHWDYLLEEMQWMATDFAQERRWKLAAAKKHQSLTGSLVVGPGSATEADPFKRQQVMPPTEQSKRPRLEVGHPGVVFQHPGVNAGVPLQQLMPTVQGGMPPTPQATQLTGQKQSQQQYDPSTGPPVQNAASLHTPPPQLPARLPPASVPATALPSTLQFSQQSQMVEASTQLQIPVKTQQLNAPIPAPLPSQLPAPSSQPAQPALHVPMPGKAQMQTSQLSSQTQTVASTRPPLDSAQPCQRSLPTSSSSSSLVPVSGSGPGPSPARSSPVNRPSSATNKALSPITSRSPGVAVSAPPKPQSPAQNAASSQDGSQDKLAEQITLENQIHQRIADLRKEGLWSLRRLPKLQEAPRPKSHWDYLLEEMQWMATDFAQERRWKLAAAKK
IRESfinder result
IRESfinder score
0.494916597
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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