top of page
mmu_circIvns1abp_585
Basic information of circular RNA
PanCircBase ID:
mmu_circIvns1abp_585
mm39_Chr. Position ID:
chr1|151231879|151236590|+
Gene name:
Ivns1abp
Transcript:
ENSMUST00000023918.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,3493,3824,4589
Genomic length:
4711
Exon/intron sizes in nt:
1,08,13,02,25,122
Flanking exon/introns:
chr1:151230510-151231879|chr1:151236590-151236682
Splice length:
585
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215563, circAtlas: mmu-Ivns1abp_0001
circBase: hsa_circ_0111501, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_29194
Human Ortholog IDs:
Mature spliced Sequence:
GTTCAAACCTTGTACTACTCAGCTGATCACAAGCTGCTTGATGGGAACCCACTAGATGGACAGGCTGAGGTGTTTGGCAGTGATGATGACCACATTCAGTTTGTGCAGAAAAAGCCACCCCGTGAGAATGGCCATAAGCAGATAAGTGGCAGTTCCACTGGATGTCTCTCTTCTCCAAATGCTTCAATGCAAAGCCCTAAGCATGAGTGGAAAATCGTTGCTTCAGAAAAGACTTCAAATAACACTTACTTGTGCCTGGCTGTGCTGGACAGTACATTCTGTGTCATTTTCCTTCATGGGCGGAACAGTCCACAGAGCTCACCAACAAGTACTCCAAAACTGAGCAAGAGTTTAAGCTTCGAGATGCAACCAGATGAGCTTCTAGAAAAGCCCATGTCTCCCATGCAGTACGCACGGTCTGGACTAGGGACAGCAGAGATGAATGGCAAACTCATAGCTGCAGGTGGTTATAACAGAGAGGAATGTCTTCGAACAGTTGAATGCTATGATCCACATACAGATCACTGGTCCTTCCTTGCTCCCATGAGAACACCAAGAGCCCGCTTTCAAATGGCTGTGCTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACTGGTCCTTCCTTGCTC
59.31
CAAACACCTCAGCCTGTCCA
60.18
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACTGGTCCTTCCTTGCTCC
60.32
TGTGGTCATCATCACTGCCA
59.31
157
PCR template sequence:
TCTTCGAACAGTTGAATGCTATGATCCACATACAGATCACTGGTCCTTCCTTGCTCCCATGAGAACACCAAGAGCCCGCTTTCAAATGGCTGTGCTGATGGTTCAAACCTTGTACTACTCAGCTGATCACAAGCTGCTTGATGGGAACCCACTAGATGGACAGGCTGAGGTGTTTGGCAGTGATGATGACCACATTCAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-297a-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTGTGCTGATGGTTCAAACCTTGT
siRNA sets
AAGGTTTGAACCATCAGCA, CAAGGTTTGAACCATCAGC, TTGAACCATCAGCACAGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIVNS1ABP_585_ORF_1
0.7532
0.141725264
0.978342803
984
ORF sequence:
ATGCAAAGCCCTAAGCATGAGTGGAAAATCGTTGCTTCAGAAAAGACTTCAAATAACACTTACTTGTGCCTGGCTGTGCTGGACAGTACATTCTGTGTCATTTTCCTTCATGGGCGGAACAGTCCACAGAGCTCACCAACAAGTACTCCAAAACTGAGCAAGAGTTTAAGCTTCGAGATGCAACCAGATGAGCTTCTAGAAAAGCCCATGTCTCCCATGCAGTACGCACGGTCTGGACTAGGGACAGCAGAGATGAATGGCAAACTCATAGCTGCAGGTGGTTATAACAGAGAGGAATGTCTTCGAACAGTTGAATGCTATGATCCACATACAGATCACTGGTCCTTCCTTGCTCCCATGAGAACACCAAGAGCCCGCTTTCAAATGGCTGTGCTGATGGTTCAAACCTTGTACTACTCAGCTGATCACAAGCTGCTTGATGGGAACCCACTAGATGGACAGGCTGAGGTGTTTGGCAGTGATGATGACCACATTCAGTTTGTGCAGAAAAAGCCACCCCGTGAGAATGGCCATAAGCAGATAAGTGGCAGTTCCACTGGATGTCTCTCTTCTCCAAATGCTTCAATGCAAAGCCCTAAGCATGAGTGGAAAATCGTTGCTTCAGAAAAGACTTCAAATAACACTTACTTGTGCCTGGCTGTGCTGGACAGTACATTCTGTGTCATTTTCCTTCATGGGCGGAACAGTCCACAGAGCTCACCAACAAGTACTCCAAAACTGAGCAAGAGTTTAAGCTTCGAGATGCAACCAGATGAGCTTCTAGAAAAGCCCATGTCTCCCATGCAGTACGCACGGTCTGGACTAGGGACAGCAGAGATGAATGGCAAACTCATAGCTGCAGGTGGTTATAACAGAGAGGAATGTCTTCGAACAGTTGAATGCTATGATCCACATACAGATCACTGGTCCTTCCTTGCTCCCATGAGAACACCAAGAGCCCGCTTTCAAATGGCTGTGCTGATG
Peptide sequence:
MQSPKHEWKIVASEKTSNNTYLCLAVLDSTFCVIFLHGRNSPQSSPTSTPKLSKSLSFEMQPDELLEKPMSPMQYARSGLGTAEMNGKLIAAGGYNREECLRTVECYDPHTDHWSFLAPMRTPRARFQMAVLMVQTLYYSADHKLLDGNPLDGQAEVFGSDDDHIQFVQKKPPRENGHKQISGSSTGCLSSPNASMQSPKHEWKIVASEKTSNNTYLCLAVLDSTFCVIFLHGRNSPQSSPTSTPKLSKSLSFEMQPDELLEKPMSPMQYARSGLGTAEMNGKLIAAGGYNREECLRTVECYDPHTDHWSFLAPMRTPRARFQMAVLM
IRESfinder result
IRESfinder score
0.446802181
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page