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mmu_circCaprin1_1099
Basic information of circular RNA
PanCircBase ID:
mmu_circCaprin1_1099
mm39_Chr. Position ID:
chr2|103598750|103606110|-
Gene name:
Caprin1
Transcript:
ENSMUST00000028607.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
18,17,16,15,14,13,12,11,10
Exon/intron offsets:
0,397,1029,3291,4263,4568,5328,7011,7204
Genomic length:
7360
Exon/intron sizes in nt:
64,10,11,95,15,11,50,10,00,00,00,000
Flanking exon/introns:
chr2:103597208-103598750|chr2:103606110-103606278
Splice length:
1099
Other database IDs:
circAtlas: mmu-Caprin1_0016
Human Ortholog IDs:
Mature spliced Sequence:
GTTGTAAACTCACTCCAGCAGCAACCTCAGGCTGCGTCCCCTTCAGTCCCAGAGCCCCACTCTTTGACTCCAGTGGCTCAGTCAGATCCACTTGTGAGAAGGCAGCGTGTACAAGATCTTATGGCACAAATGCAAGGGCCCTATAATTTCATACAGGATTCAATGTTGGATTTTGAAAATCAGACGCTTGATCCTGCCATTGTATCCGCACAGCCTATGAACCCTACCCAGAACATGGATATGCCTCAGCTGGTTTGCCCTCAGGTTCATTCTGAATCTAGACTTGCCCAATCTAATCAAGTTCCTGTACAACCAGAAGCCACACAGGTTCCTTTGGTTTCATCCACAAGTGAGGGGTATACAGCATCTCAGCCCTTGTACCAGCCATCTCATGCTACGGAGCAGCGGCCGCAGAAAGAGCCAATGGATCAGATTCAGGCAACAATATCTTTGAATACAGACCAGACTACAGCATCCTCATCCCTTCCTGCTGCTTCTCAGCCTCAAGTGTTCCAGGCTGGGACAAGTAAACCTTTGCACAGCAGTGGAATCAATGTAAATGCAGCTCCATTCCAGTCCATGCAAACGGTGTTCAATATGAATGCTCCAGTCCCTCCTGCTAATGAACCAGAAACGTTAAAACAACAGAGTCAGTACCAGGCCACTTATAACCAGAGTTTTTCCAGTCAGCCTCACCAAGTGGAACAAACAGAGCTTCAACAAGACCAACTGCAAACGGTGGTTGGCACTTACCATGGATCCCAGGACCAGCCTCATCAAGTGCCTGGTAACCACCAGCAACCCCCACAGCAGAACACTGGCTTTCCACGTAGCAGTCAGCCTTATTACAACAGTCGTGGGGTATCTCGAGGAGGGTCTCGTGGTGCCAGAGGCTTGATGAATGGATACAGGGGCCCTGCCAATGGATTTAGAGGAGGATATGATGGTTACCGCCCTTCATTCTCGAACACTCCAAACAGTGGTTATTCACAGTCTCAGTTCACTGCTCCCCGGGACTACTCTGGTTACCAGCGGGATGGATATCAGCAGAATTTCAAGCGAGGCTCTGGGCAGAGTGGACCACGGGGAGCCCCACGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCGGGACTACTCTGGTTA
60.03
GGAGTCAAAGAGTGGGGCTC
60.04
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCGGGACTACTCTGGTTA
60.03
TCTGACTGAGCCACTGGAGT
60.18
177
PCR template sequence:
TTCACTGCTCCCCGGGACTACTCTGGTTACCAGCGGGATGGATATCAGCAGAATTTCAAGCGAGGCTCTGGGCAGAGTGGACCACGGGGAGCCCCACGAGGTTGTAAACTCACTCCAGCAGCAACCTCAGGCTGCGTCCCCTTCAGTCCCAGAGCCCCACTCTTTGACTCCAGTGGCTCAGTCAGATCCACTTGTGAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-122-5p(1), mmu-miR-138-5p(1), mmu-miR-127-5p(1), mmu-miR-5101(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGCCCCACGAGGTTGTAAACTCAC
siRNA sets
TGAGTTTACAACCTCGTGG, TTTACAACCTCGTGGGGCT, GAGTTTACAACCTCGTGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCAPRIN1_1099_ORF_1
1.174
0.129754523
0.998855488
1296
ORF sequence:
ATGGATACAGGGGCCCTGCCAATGGATTTAGAGGAGGATATGATGGTTACCGCCCTTCATTCTCGAACACTCCAAACAGTGGTTATTCACAGTCTCAGTTCACTGCTCCCCGGGACTACTCTGGTTACCAGCGGGATGGATATCAGCAGAATTTCAAGCGAGGCTCTGGGCAGAGTGGACCACGGGGAGCCCCACGAGGTTGTAAACTCACTCCAGCAGCAACCTCAGGCTGCGTCCCCTTCAGTCCCAGAGCCCCACTCTTTGACTCCAGTGGCTCAGTCAGATCCACTTGTGAGAAGGCAGCGTGTACAAGATCTTATGGCACAAATGCAAGGGCCCTATAATTTCATACAGGATTCAATGTTGGATTTTGAAAATCAGACGCTTGATCCTGCCATTGTATCCGCACAGCCTATGAACCCTACCCAGAACATGGATATGCCTCAGCTGGTTTGCCCTCAGGTTCATTCTGAATCTAGACTTGCCCAATCTAATCAAGTTCCTGTACAACCAGAAGCCACACAGGTTCCTTTGGTTTCATCCACAAGTGAGGGGTATACAGCATCTCAGCCCTTGTACCAGCCATCTCATGCTACGGAGCAGCGGCCGCAGAAAGAGCCAATGGATCAGATTCAGGCAACAATATCTTTGAATACAGACCAGACTACAGCATCCTCATCCCTTCCTGCTGCTTCTCAGCCTCAAGTGTTCCAGGCTGGGACAAGTAAACCTTTGCACAGCAGTGGAATCAATGTAAATGCAGCTCCATTCCAGTCCATGCAAACGGTGTTCAATATGAATGCTCCAGTCCCTCCTGCTAATGAACCAGAAACGTTAAAACAACAGAGTCAGTACCAGGCCACTTATAACCAGAGTTTTTCCAGTCAGCCTCACCAAGTGGAACAAACAGAGCTTCAACAAGACCAACTGCAAACGGTGGTTGGCACTTACCATGGATCCCAGGACCAGCCTCATCAAGTGCCTGGTAACCACCAGCAACCCCCACAGCAGAACACTGGCTTTCCACGTAGCAGTCAGCCTTATTACAACAGTCGTGGGGTATCTCGAGGAGGGTCTCGTGGTGCCAGAGGCTTGATGAATGGATACAGGGGCCCTGCCAATGGATTTAGAGGAGGATATGATGGTTACCGCCCTTCATTCTCGAACACTCCAAACAGTGGTTATTCACAGTCTCAGTTCACTGCTCCCCGGGACTACTCTGGTTACCAGCGGGATGGATATCAGCAGAATTTCAAGCGAGGCTCTGGGCAGAGTGGACCACGGGGAGCCCCACGA
Peptide sequence:
MDTGALPMDLEEDMMVTALHSRTLQTVVIHSLSSLLPGTTLVTSGMDISRISSEALGRVDHGEPHEVVNSLQQQPQAASPSVPEPHSLTPVAQSDPLVRRQRVQDLMAQMQGPYNFIQDSMLDFENQTLDPAIVSAQPMNPTQNMDMPQLVCPQVHSESRLAQSNQVPVQPEATQVPLVSSTSEGYTASQPLYQPSHATEQRPQKEPMDQIQATISLNTDQTTASSSLPAASQPQVFQAGTSKPLHSSGINVNAAPFQSMQTVFNMNAPVPPANEPETLKQQSQYQATYNQSFSSQPHQVEQTELQQDQLQTVVGTYHGSQDQPHQVPGNHQQPPQQNTGFPRSSQPYYNSRGVSRGGSRGARGLMNGYRGPANGFRGGYDGYRPSFSNTPNSGYSQSQFTAPRDYSGYQRDGYQQNFKRGSGQSGPRGAPR
IRESfinder result
IRESfinder score
0.680742712
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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