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mmu_circHip1r_1158
Basic information of circular RNA
PanCircBase ID:
mmu_circHip1r_1158
mm39_Chr. Position ID:
chr5|124135426|124138837|+
Gene name:
Hip1r
Transcript:
ENSMUST00000000939.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
16,17,18,19,20,21,22,23,24,25,26
Exon/intron offsets:
0,187,494,1422,1678,2119,2407,2776,2982,3238,3348
Genomic length:
3411
Exon/intron sizes in nt:
117,102,195,148,87,108,137,111,59,31,63
Flanking exon/introns:
chr5:124135355-124135426|chr5:124138837-124139054
Splice length:
1158
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AACGCAGACACGGCCAAGCAGCTGACAGTGACACAGCAGAGCCAGGAGGAGGTGGCACGGGTAAAGGAACAGCTGGCCTTCCAGATGGAGCAAGCGAAGCGTGAGTCTGAGATGAAGATGGAAGAGCAGAGCGACCAGTTGGAGAAGCTCAAGAGGGAGCTGGCGGCCAGGGCAGGAGAGCTGGCCCGTGCGCAGGAGGCCCTGAGCCGCACAGAACAGAGTGGGTCAGAGCTGAGCTCACGGCTGGACACACTGAATGCGGAGAAGGAAGCTCTGAGTGGAGTCGTTCGGCAGCGTGAGGCAGAGCTGCTGGCCGCTCAGAGCCTGGTGCGGGAGAAGGAGGAGGCACTTAGCCAAGAGCAGCAGCGGAGCTCCCAGGAGAAGGGCGAGCTACGGGGGCAGCTGGCAGAAAAGGAGTCTCAGGAGCAGGGGCTTCGGCAGAAGCTGCTGGATGAGCAGTTGGCGGTGTTGCGAAGTGCAGCCGCCGAGGCAGAGGCCATCCTACAGGATGCAGTGAGCAAGCTGGACGACCCCCTGCACCTCCGCTGCACCAGCTCCCCAGACTACTTGGTGAGCCGGGCTCAGGCAGCCCTGGACAGCGTGAGCGGCCTGGAGCAGGGCCACACCCAGTACCTGGCTTCCTCTGAAGATGCTTCTGCCCTGGTGGCAGCGCTGACCCGCTTCTCCCATTTGGCTGCGGACACCATTGTCAATGGTGCCGCCACCTCCCACCTGGCCCCCACCGACCCCGCCGACCGCCTGATGGACACATGCAGGGAGTGTGGAGCCCGGGCTCTGGAGCTGGTGGGACAGCTGCAAGACCAGACAGTGCTACCGAGGGCTCAGCCCAGCCTGATGCGGGCCCCCCTGCAGGGCATTCTGCAGTTGGGCCAGGACTTGAAGCCTAAGAGCCTGGATGTACGGCAAGAGGAGCTAGGGGCCATGGTGGACAAGGAGATGGCGGCCACCTCGGCAGCCATTGAGGACGCTGTGCGGAGGATCGAGGACATGATGAGCCAGGCCCGCCACGAGAGCTCGGGCGTGAAACTGGAGGTGAATGAGAGGATCCTCAACTCCTGCACAGACCTGATGAAGGCTATCCGGCTCCTGGTGATGACCTCCACCAGCCTGCAGAAGGAAATTGTGGAGAGCGGCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TATCCGGCTCCTGGTGATGA
60.11
AGGCCAGCTGTTCCTTTACC
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATCCGGCTCCTGGTGATGA
60.11
TCGCTTGCTCCATCTGGAAG
60.11
158
PCR template sequence:
TGAGAGGATCCTCAACTCCTGCACAGACCTGATGAAGGCTATCCGGCTCCTGGTGATGACCTCCACCAGCCTGCAGAAGGAAATTGTGGAGAGCGGCAGGAACGCAGACACGGCCAAGCAGCTGACAGTGACACAGCAGAGCCAGGAGGAGGTGGCACGGGTAAAGGAACAGCTGGCCTTCCAGATGGAGCAAGCGAAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-431-5p(1), mmu-miR-467b-5p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGAGCGGCAGGAACGCAGACACGG
siRNA sets
CCGTGTCTGCGTTCCTGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHIP1R_1158_ORF_1
1.1848
0.619503046
0.999999823
2232
ORF sequence:
ATGGAGCAAGCGAAGCGTGAGTCTGAGATGAAGATGGAAGAGCAGAGCGACCAGTTGGAGAAGCTCAAGAGGGAGCTGGCGGCCAGGGCAGGAGAGCTGGCCCGTGCGCAGGAGGCCCTGAGCCGCACAGAACAGAGTGGGTCAGAGCTGAGCTCACGGCTGGACACACTGAATGCGGAGAAGGAAGCTCTGAGTGGAGTCGTTCGGCAGCGTGAGGCAGAGCTGCTGGCCGCTCAGAGCCTGGTGCGGGAGAAGGAGGAGGCACTTAGCCAAGAGCAGCAGCGGAGCTCCCAGGAGAAGGGCGAGCTACGGGGGCAGCTGGCAGAAAAGGAGTCTCAGGAGCAGGGGCTTCGGCAGAAGCTGCTGGATGAGCAGTTGGCGGTGTTGCGAAGTGCAGCCGCCGAGGCAGAGGCCATCCTACAGGATGCAGTGAGCAAGCTGGACGACCCCCTGCACCTCCGCTGCACCAGCTCCCCAGACTACTTGGTGAGCCGGGCTCAGGCAGCCCTGGACAGCGTGAGCGGCCTGGAGCAGGGCCACACCCAGTACCTGGCTTCCTCTGAAGATGCTTCTGCCCTGGTGGCAGCGCTGACCCGCTTCTCCCATTTGGCTGCGGACACCATTGTCAATGGTGCCGCCACCTCCCACCTGGCCCCCACCGACCCCGCCGACCGCCTGATGGACACATGCAGGGAGTGTGGAGCCCGGGCTCTGGAGCTGGTGGGACAGCTGCAAGACCAGACAGTGCTACCGAGGGCTCAGCCCAGCCTGATGCGGGCCCCCCTGCAGGGCATTCTGCAGTTGGGCCAGGACTTGAAGCCTAAGAGCCTGGATGTACGGCAAGAGGAGCTAGGGGCCATGGTGGACAAGGAGATGGCGGCCACCTCGGCAGCCATTGAGGACGCTGTGCGGAGGATCGAGGACATGATGAGCCAGGCCCGCCACGAGAGCTCGGGCGTGAAACTGGAGGTGAATGAGAGGATCCTCAACTCCTGCACAGACCTGATGAAGGCTATCCGGCTCCTGGTGATGACCTCCACCAGCCTGCAGAAGGAAATTGTGGAGAGCGGCAGGAACGCAGACACGGCCAAGCAGCTGACAGTGACACAGCAGAGCCAGGAGGAGGTGGCACGGGTAAAGGAACAGCTGGCCTTCCAGATGGAGCAAGCGAAGCGTGAGTCTGAGATGAAGATGGAAGAGCAGAGCGACCAGTTGGAGAAGCTCAAGAGGGAGCTGGCGGCCAGGGCAGGAGAGCTGGCCCGTGCGCAGGAGGCCCTGAGCCGCACAGAACAGAGTGGGTCAGAGCTGAGCTCACGGCTGGACACACTGAATGCGGAGAAGGAAGCTCTGAGTGGAGTCGTTCGGCAGCGTGAGGCAGAGCTGCTGGCCGCTCAGAGCCTGGTGCGGGAGAAGGAGGAGGCACTTAGCCAAGAGCAGCAGCGGAGCTCCCAGGAGAAGGGCGAGCTACGGGGGCAGCTGGCAGAAAAGGAGTCTCAGGAGCAGGGGCTTCGGCAGAAGCTGCTGGATGAGCAGTTGGCGGTGTTGCGAAGTGCAGCCGCCGAGGCAGAGGCCATCCTACAGGATGCAGTGAGCAAGCTGGACGACCCCCTGCACCTCCGCTGCACCAGCTCCCCAGACTACTTGGTGAGCCGGGCTCAGGCAGCCCTGGACAGCGTGAGCGGCCTGGAGCAGGGCCACACCCAGTACCTGGCTTCCTCTGAAGATGCTTCTGCCCTGGTGGCAGCGCTGACCCGCTTCTCCCATTTGGCTGCGGACACCATTGTCAATGGTGCCGCCACCTCCCACCTGGCCCCCACCGACCCCGCCGACCGCCTGATGGACACATGCAGGGAGTGTGGAGCCCGGGCTCTGGAGCTGGTGGGACAGCTGCAAGACCAGACAGTGCTACCGAGGGCTCAGCCCAGCCTGATGCGGGCCCCCCTGCAGGGCATTCTGCAGTTGGGCCAGGACTTGAAGCCTAAGAGCCTGGATGTACGGCAAGAGGAGCTAGGGGCCATGGTGGACAAGGAGATGGCGGCCACCTCGGCAGCCATTGAGGACGCTGTGCGGAGGATCGAGGACATGATGAGCCAGGCCCGCCACGAGAGCTCGGGCGTGAAACTGGAGGTGAATGAGAGGATCCTCAACTCCTGCACAGACCTGATGAAGGCTATCCGGCTCCTGGTGATGACCTCCACCAGCCTGCAGAAGGAAATTGTGGAGAGCGGCAGG
Peptide sequence:
MEQAKRESEMKMEEQSDQLEKLKRELAARAGELARAQEALSRTEQSGSELSSRLDTLNAEKEALSGVVRQREAELLAAQSLVREKEEALSQEQQRSSQEKGELRGQLAEKESQEQGLRQKLLDEQLAVLRSAAAEAEAILQDAVSKLDDPLHLRCTSSPDYLVSRAQAALDSVSGLEQGHTQYLASSEDASALVAALTRFSHLAADTIVNGAATSHLAPTDPADRLMDTCRECGARALELVGQLQDQTVLPRAQPSLMRAPLQGILQLGQDLKPKSLDVRQEELGAMVDKEMAATSAAIEDAVRRIEDMMSQARHESSGVKLEVNERILNSCTDLMKAIRLLVMTSTSLQKEIVESGRNADTAKQLTVTQQSQEEVARVKEQLAFQMEQAKRESEMKMEEQSDQLEKLKRELAARAGELARAQEALSRTEQSGSELSSRLDTLNAEKEALSGVVRQREAELLAAQSLVREKEEALSQEQQRSSQEKGELRGQLAEKESQEQGLRQKLLDEQLAVLRSAAAEAEAILQDAVSKLDDPLHLRCTSSPDYLVSRAQAALDSVSGLEQGHTQYLASSEDASALVAALTRFSHLAADTIVNGAATSHLAPTDPADRLMDTCRECGARALELVGQLQDQTVLPRAQPSLMRAPLQGILQLGQDLKPKSLDVRQEELGAMVDKEMAATSAAIEDAVRRIEDMMSQARHESSGVKLEVNERILNSCTDLMKAIRLLVMTSTSLQKEIVESGR
IRESfinder result
IRESfinder score
0.139126275
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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