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mmu_circEce1_1390
Basic information of circular RNA
PanCircBase ID:
mmu_circEce1_1390
mm39_Chr. Position ID:
chr4|137653529|137678912|+
Gene name:
Ece1
Transcript:
ENSMUST00000102518.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
5,6,7,8,9,10,11,12,13,14,15
Exon/intron offsets:
0,9042,10439,11120,12405,18798,20036,22325,23228,23937,25279
Genomic length:
25383
Exon/intron sizes in nt:
213,122,147,66,192,143,115,111,99,78,104
Flanking exon/introns:
chr4:137648473-137653529|chr4:137678912-137683768
Splice length:
1390
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAACGCCTCCGGTATGTCTGACGGAGGCCTGTGTCTCAGTGACCAGCTCTATCCTAAACTCCATGGACCCCACAGTAGACCCGTGCCAGGACTTCTTCAGCTACGCCTGCGGGGGCTGGATCAAGGCCAACCCCGTGCCCGATGGCCACTCACGCTGGGGAACCTTCAGCAACCTCTGGGAACACAACCAAGCTGTCATCAAGCATCTACTGGAAAATGCCACGGCCAGTGTGAGCGAGGCAGAGAGAAAAGCCCAAGTGTACTACCGTGCGTGCATGAACGAAACTAGGATTGAGGAGCTTCGGGCCAAGCCCCTGATGGAGCTGATTGAGAAGCTGGGAGGCTGGAATATCACAGGACCCTGGGCCAAGGACAACTTCCAGGACACACTGCAGGTGGTCACAGCTCACTACCGCACCTCACCCTTCTTCTCTGTTTATGTCAGCGCGGACTCCAAGAATTCCAACAGCAATGTGATCCAGGTGGACCAGTCCGGCCTTGGCTTGCCCTCCAGAGACTATTACCTGAACAAGACAGAGAATGAAAAGGTCCTGACTGGATACCTGAACTACATGGTCCAGCTGGGGAAGCTCCTGGGCGGTGGGGACGAGGATGCCATCCGGCCACAGATGCAGCAGATCCTGGATTTTGAGACGGCGCTGGCCAACATCACCATCCCCCAGGAGAAGCGCAGGGATGAAGAACTCATCTACCACAAAGTCACGGCTGCCGAGCTGCAGACCTTGGCACCTGCCATCAACTGGTTACCCTTTCTGAACACCATTTTTTACCCAGTGGAGATCAATGAGTCTGAGCCAATCGTGGTCTACGACAAGGAATACTTGAGACAAGTCTCCACCCTCATCAACAACACCGACAAATGTCTGCTCAACAACTACATGATGTGGAACCTGGTACGCAAAACAAGCTCCTTCCTGGACCAGCGCTTTCAGGACGCCGACGAGAAGTTCATGGAGGTTATGTATGGGACGAAGAAGACCTGTATTCCCCGCTGGAAGTTTTGTGTGAGTGACACGGAAAACAACCTGGGCTTTGCCCTGGGACCCATGTTTGTGAAAGCAACCTTTGCAGAAGACAGTAAGAATATAGCCAGTGAGATCATCATGGAGATCAAGAAGGCGTTTGAGGAGAGTCTGAGCACTCTGAAATGGATGGATGAAGAGACTCGGAGATCAGCCAAGGAGAAGGCGGATGCTATCTACAACATGATAGGCTACCCCAACTTCATCATGGACCCCAAGGAGCTGGACAAAGTCTTCAATGACTACACAGCAGTTCCTGATCTCTACTTTGAGAACGCCATGCGCTTTTTCAACTTCTCATGGAGGGTCACAGCTGACCAGCTCAGAAAAGCTCCCAACAGAGATCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCATGGAGGGTCACAGCTG
60.11
CTGAAGAAGTCCTGGCACGG
60.67
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCATGGAGGGTCACAGCT
60.25
CTGAAGAAGTCCTGGCACGG
60.67
152
PCR template sequence:
CAGCAGTTCCTGATCTCTACTTTGAGAACGCCATGCGCTTTTTCAACTTCTCATGGAGGGTCACAGCTGACCAGCTCAGAAAAGCTCCCAACAGAGATCAGAACGCCTCCGGTATGTCTGACGGAGGCCTGTGTCTCAGTGACCAGCTCTATCCTAAACTCCATGGACCCCACAGTAGACCCGTGCCAGGACTTCTTCAG
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-23b-3p(1), mmu-miR-93-5p(1), mmu-miR-26a-5p(1), mmu-miR-23a-3p(1), mmu-miR-676-3p(1), mmu-miR-382-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-207(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAACAGAGATCAGAACGCCTCCGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCECE1_1390_ORF_1
1.1231
0.436360643
0.999964051
1617
ORF sequence:
ATGGACCCCACAGTAGACCCGTGCCAGGACTTCTTCAGCTACGCCTGCGGGGGCTGGATCAAGGCCAACCCCGTGCCCGATGGCCACTCACGCTGGGGAACCTTCAGCAACCTCTGGGAACACAACCAAGCTGTCATCAAGCATCTACTGGAAAATGCCACGGCCAGTGTGAGCGAGGCAGAGAGAAAAGCCCAAGTGTACTACCGTGCGTGCATGAACGAAACTAGGATTGAGGAGCTTCGGGCCAAGCCCCTGATGGAGCTGATTGAGAAGCTGGGAGGCTGGAATATCACAGGACCCTGGGCCAAGGACAACTTCCAGGACACACTGCAGGTGGTCACAGCTCACTACCGCACCTCACCCTTCTTCTCTGTTTATGTCAGCGCGGACTCCAAGAATTCCAACAGCAATGTGATCCAGGTGGACCAGTCCGGCCTTGGCTTGCCCTCCAGAGACTATTACCTGAACAAGACAGAGAATGAAAAGGTCCTGACTGGATACCTGAACTACATGGTCCAGCTGGGGAAGCTCCTGGGCGGTGGGGACGAGGATGCCATCCGGCCACAGATGCAGCAGATCCTGGATTTTGAGACGGCGCTGGCCAACATCACCATCCCCCAGGAGAAGCGCAGGGATGAAGAACTCATCTACCACAAAGTCACGGCTGCCGAGCTGCAGACCTTGGCACCTGCCATCAACTGGTTACCCTTTCTGAACACCATTTTTTACCCAGTGGAGATCAATGAGTCTGAGCCAATCGTGGTCTACGACAAGGAATACTTGAGACAAGTCTCCACCCTCATCAACAACACCGACAAATGTCTGCTCAACAACTACATGATGTGGAACCTGGTACGCAAAACAAGCTCCTTCCTGGACCAGCGCTTTCAGGACGCCGACGAGAAGTTCATGGAGGTTATGTATGGGACGAAGAAGACCTGTATTCCCCGCTGGAAGTTTTGTGTGAGTGACACGGAAAACAACCTGGGCTTTGCCCTGGGACCCATGTTTGTGAAAGCAACCTTTGCAGAAGACAGTAAGAATATAGCCAGTGAGATCATCATGGAGATCAAGAAGGCGTTTGAGGAGAGTCTGAGCACTCTGAAATGGATGGATGAAGAGACTCGGAGATCAGCCAAGGAGAAGGCGGATGCTATCTACAACATGATAGGCTACCCCAACTTCATCATGGACCCCAAGGAGCTGGACAAAGTCTTCAATGACTACACAGCAGTTCCTGATCTCTACTTTGAGAACGCCATGCGCTTTTTCAACTTCTCATGGAGGGTCACAGCTGACCAGCTCAGAAAAGCTCCCAACAGAGATCAGAACGCCTCCGGTATGTCTGACGGAGGCCTGTGTCTCAGTGACCAGCTCTATCCTAAACTCCATGGACCCCACAGTAGACCCGTGCCAGGACTTCTTCAGCTACGCCTGCGGGGGCTGGATCAAGGCCAACCCCGTGCCCGATGGCCACTCACGCTGGGGAACCTTCAGCAACCTCTGGGAACACAACCAAGCTGTCATCAAGCATCTACTGGAAAATGCCACGGCCAGTGTGAGCGAGGCAGAGAGAAAAGCCCAAGTGTACTACCGTGCGTGCATGAACGAAACTAG
Peptide sequence:
MDPTVDPCQDFFSYACGGWIKANPVPDGHSRWGTFSNLWEHNQAVIKHLLENATASVSEAERKAQVYYRACMNETRIEELRAKPLMELIEKLGGWNITGPWAKDNFQDTLQVVTAHYRTSPFFSVYVSADSKNSNSNVIQVDQSGLGLPSRDYYLNKTENEKVLTGYLNYMVQLGKLLGGGDEDAIRPQMQQILDFETALANITIPQEKRRDEELIYHKVTAAELQTLAPAINWLPFLNTIFYPVEINESEPIVVYDKEYLRQVSTLINNTDKCLLNNYMMWNLVRKTSSFLDQRFQDADEKFMEVMYGTKKTCIPRWKFCVSDTENNLGFALGPMFVKATFAEDSKNIASEIIMEIKKAFEESLSTLKWMDEETRRSAKEKADAIYNMIGYPNFIMDPKELDKVFNDYTAVPDLYFENAMRFFNFSWRVTADQLRKAPNRDQNASGMSDGGLCLSDQLYPKLHGPHSRPVPGLLQLRLRGLDQGQPRARWPLTLGNLQQPLGTQPSCHQASTGKCHGQCERGREKSPSVLPCVHERN
IRESfinder result
IRESfinder score
0.34473159
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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