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mmu_circEpb41l3_1095
Basic information of circular RNA
PanCircBase ID:
mmu_circEpb41l3_1095
mm39_Chr. Position ID:
chr17|69577605|69594332|+
Gene name:
Epb41l3
Transcript:
ENSMUST00000239167.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
13,14,15,16,17,18,19,20
Exon/intron offsets:
0,3271,4093,13274,13928,15291,16102,16646
Genomic length:
16727
Exon/intron sizes in nt:
54,36,192,123,378,132,99,81
Flanking exon/introns:
chr17:69569341-69577605|chr17:69594332-69594606
Splice length:
1095
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACTGACAGTGAACGGACAGACACTGCAGCTGATGGAGAGACCAGTGCCACGGAGTCGGACCAGGAGGAAGATGCAGAGATCAAGGCACAGGATCTAGATAAAACTCAAGATGAGCTGATGAAGCACCAAACCAATATTAGTGAGCTGAAAAGAACCTTCTTAGAAACCTCTACAGAAACTGCCTTAACAAACGAGTGGGAAAAGAGGCTCTCTACATCTCCCGTGCGGCTGGCGGCCAGGCAGGAGGATGCACCCATGATTGAGCCGCTGGTACCCGAGGAGACCAAACAGTCTTCTGGGGAGAAGCTGATGGATGGCTCGGAGATCCTCAGTCTGTTAGAGTCTGCGCGGAAACCCACAGAGTTCATAGGAGGGGTTTCGTCTACTACCCAGAGCTGGGTGCAGAAACTGGAAACAAAGACTGAGCCTGTAGAAGCAGAGGTGGAATCCACGCCACACCCTCAGCCCCTCAGCACGGAGAAGGTGTTGCAGGAAACGATACTGGTAGAGGAGAGGCATGTGATGAGTGTGCACGCCAGCGGGGATGCCTCGCACACAGCCAGGGATGAAGTTGATGCTGCAGAATCCACACCCACAGATCGCCGCCACACTGGGAAAGGGAAGGAGGGCTCTTCTGTGACAGAAGCAGCCAAGGAACAGAGAGGCGAGGAGGTTGACCAGTCTGCTCCCGAGCAGGAACAGCCAGCCACTGTCTCCCATGAGGAGGAGCAGGCGTCGACCATCCGCACTTCTGAGGGTTTGGAACAAAAATCTCATTTTGAGTCATCCACCGTGAGGGTAGAAAGCACGAGTGTGGGCAGTATTTCTCCAGGAGGAGCAAAGCTAGAGATCTCTACCAAGGAGGTGCCCGTAGTCCACACGGAAACGAAAACCATCACGTACGAGTCATCTCAGGTCGATCCTGGGGCAGATCTGGAGCCAGGTGTGCTAATGAGTGCCCAGACGATCACGTCTGAAACCACTAGTACTACCACCACCACACACATCACCAAAACTGTGAAAGGAGGCATTTCGGAGACGAGGATTGAGAAGCGAATAGTCATCACAGGGGACGCTGACATTGACCATGACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAAAGGAGGCATTTCGGA
59.93
CCTGTGCCTTGATCTCTGCA
60.04
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAAAGGAGGCATTTCGGA
59.93
CTGCATCTTCCTCCTGGTCC
59.82
155
PCR template sequence:
CACCACACACATCACCAAAACTGTGAAAGGAGGCATTTCGGAGACGAGGATTGAGAAGCGAATAGTCATCACAGGGGACGCTGACATTGACCATGACCAGACTGACAGTGAACGGACAGACACTGCAGCTGATGGAGAGACCAGTGCCACGGAGTCGGACCAGGAGGAAGATGCAGAGATCAAGGCACAGGATCTAGATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-199a-5p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-324-5p(1), mmu-miR-149-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
TGACCATGACCAGACTGACAGTGAAC
siRNA sets
TGTCAGTCTGGTCATGGTC, GTTCACTGTCAGTCTGGTC, TTCACTGTCAGTCTGGTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEPB41L3_1095_ORF_1
1.1172
0.378495711
0.999998309
2073
ORF sequence:
ATGAAGCACCAAACCAATATTAGTGAGCTGAAAAGAACCTTCTTAGAAACCTCTACAGAAACTGCCTTAACAAACGAGTGGGAAAAGAGGCTCTCTACATCTCCCGTGCGGCTGGCGGCCAGGCAGGAGGATGCACCCATGATTGAGCCGCTGGTACCCGAGGAGACCAAACAGTCTTCTGGGGAGAAGCTGATGGATGGCTCGGAGATCCTCAGTCTGTTAGAGTCTGCGCGGAAACCCACAGAGTTCATAGGAGGGGTTTCGTCTACTACCCAGAGCTGGGTGCAGAAACTGGAAACAAAGACTGAGCCTGTAGAAGCAGAGGTGGAATCCACGCCACACCCTCAGCCCCTCAGCACGGAGAAGGTGTTGCAGGAAACGATACTGGTAGAGGAGAGGCATGTGATGAGTGTGCACGCCAGCGGGGATGCCTCGCACACAGCCAGGGATGAAGTTGATGCTGCAGAATCCACACCCACAGATCGCCGCCACACTGGGAAAGGGAAGGAGGGCTCTTCTGTGACAGAAGCAGCCAAGGAACAGAGAGGCGAGGAGGTTGACCAGTCTGCTCCCGAGCAGGAACAGCCAGCCACTGTCTCCCATGAGGAGGAGCAGGCGTCGACCATCCGCACTTCTGAGGGTTTGGAACAAAAATCTCATTTTGAGTCATCCACCGTGAGGGTAGAAAGCACGAGTGTGGGCAGTATTTCTCCAGGAGGAGCAAAGCTAGAGATCTCTACCAAGGAGGTGCCCGTAGTCCACACGGAAACGAAAACCATCACGTACGAGTCATCTCAGGTCGATCCTGGGGCAGATCTGGAGCCAGGTGTGCTAATGAGTGCCCAGACGATCACGTCTGAAACCACTAGTACTACCACCACCACACACATCACCAAAACTGTGAAAGGAGGCATTTCGGAGACGAGGATTGAGAAGCGAATAGTCATCACAGGGGACGCTGACATTGACCATGACCAGACTGACAGTGAACGGACAGACACTGCAGCTGATGGAGAGACCAGTGCCACGGAGTCGGACCAGGAGGAAGATGCAGAGATCAAGGCACAGGATCTAGATAAAACTCAAGATGAGCTGATGAAGCACCAAACCAATATTAGTGAGCTGAAAAGAACCTTCTTAGAAACCTCTACAGAAACTGCCTTAACAAACGAGTGGGAAAAGAGGCTCTCTACATCTCCCGTGCGGCTGGCGGCCAGGCAGGAGGATGCACCCATGATTGAGCCGCTGGTACCCGAGGAGACCAAACAGTCTTCTGGGGAGAAGCTGATGGATGGCTCGGAGATCCTCAGTCTGTTAGAGTCTGCGCGGAAACCCACAGAGTTCATAGGAGGGGTTTCGTCTACTACCCAGAGCTGGGTGCAGAAACTGGAAACAAAGACTGAGCCTGTAGAAGCAGAGGTGGAATCCACGCCACACCCTCAGCCCCTCAGCACGGAGAAGGTGTTGCAGGAAACGATACTGGTAGAGGAGAGGCATGTGATGAGTGTGCACGCCAGCGGGGATGCCTCGCACACAGCCAGGGATGAAGTTGATGCTGCAGAATCCACACCCACAGATCGCCGCCACACTGGGAAAGGGAAGGAGGGCTCTTCTGTGACAGAAGCAGCCAAGGAACAGAGAGGCGAGGAGGTTGACCAGTCTGCTCCCGAGCAGGAACAGCCAGCCACTGTCTCCCATGAGGAGGAGCAGGCGTCGACCATCCGCACTTCTGAGGGTTTGGAACAAAAATCTCATTTTGAGTCATCCACCGTGAGGGTAGAAAGCACGAGTGTGGGCAGTATTTCTCCAGGAGGAGCAAAGCTAGAGATCTCTACCAAGGAGGTGCCCGTAGTCCACACGGAAACGAAAACCATCACGTACGAGTCATCTCAGGTCGATCCTGGGGCAGATCTGGAGCCAGGTGTGCTAATGAGTGCCCAGACGATCACGTCTGAAACCACTAGTACTACCACCACCACACACATCACCAAAACTGTGAAAGGAGGCATTTCGGAGACGAGGATTGAGAAGCGAATAGTCATCACAGGGGACGCTGACATTGACCATGACCAG
Peptide sequence:
MKHQTNISELKRTFLETSTETALTNEWEKRLSTSPVRLAARQEDAPMIEPLVPEETKQSSGEKLMDGSEILSLLESARKPTEFIGGVSSTTQSWVQKLETKTEPVEAEVESTPHPQPLSTEKVLQETILVEERHVMSVHASGDASHTARDEVDAAESTPTDRRHTGKGKEGSSVTEAAKEQRGEEVDQSAPEQEQPATVSHEEEQASTIRTSEGLEQKSHFESSTVRVESTSVGSISPGGAKLEISTKEVPVVHTETKTITYESSQVDPGADLEPGVLMSAQTITSETTSTTTTTHITKTVKGGISETRIEKRIVITGDADIDHDQTDSERTDTAADGETSATESDQEEDAEIKAQDLDKTQDELMKHQTNISELKRTFLETSTETALTNEWEKRLSTSPVRLAARQEDAPMIEPLVPEETKQSSGEKLMDGSEILSLLESARKPTEFIGGVSSTTQSWVQKLETKTEPVEAEVESTPHPQPLSTEKVLQETILVEERHVMSVHASGDASHTARDEVDAAESTPTDRRHTGKGKEGSSVTEAAKEQRGEEVDQSAPEQEQPATVSHEEEQASTIRTSEGLEQKSHFESSTVRVESTSVGSISPGGAKLEISTKEVPVVHTETKTITYESSQVDPGADLEPGVLMSAQTITSETTSTTTTTHITKTVKGGISETRIEKRIVITGDADIDHDQ
IRESfinder result
IRESfinder score
0.32446607
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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