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mmu_circTrpc4ap_1050
Basic information of circular RNA
PanCircBase ID:
mmu_circTrpc4ap_1050
mm39_Chr. Position ID:
chr2|155492338|155515038|-
Gene name:
Trpc4ap
Transcript:
ENSMUST00000041059.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,3074,7317,13238,15783,17993,20621,22571
Genomic length:
22700
Exon/intron sizes in nt:
1,67,18,62,08,12,95,65,00,00,000
Flanking exon/introns:
chr2:155486979-155492338|chr2:155515038-155534058
Splice length:
1050
Other database IDs:
circAtlas: mmu-Trpc4ap_0014
Human Ortholog IDs:
Mature spliced Sequence:
TTCACTGAGACCTTTTTGACCGAGAGGGACAAATTGTCCAAATGGAGTGGAATTCCTCAGTTGCTCCTTAAGCTGTATGCCACCAGCCATCTGCACAGTGACTTCGTTGAGTGCCAAAGCATTCTCAAGGAGATTTCTCCTCTTCTCTCTATGGAGGCTATGGCGTTTGTAACTGAAGACAGGAAATTTACTCAAGAAGCTACATACCCAAATACATATATTTTTGACTTATTTGGAGGTGTTGATCTTCTTGTAGAAATTCTTATGAGGCCTACCATCTCTATCCGGGGACAGAAACTAAAAATAAGTGACGAGATGTCGAAGGACTGCTTGAGCATCCTGTACAATACCTGTGTCTGCACGGAAGGAGTAACGAAGCGTTTGGCAGAAAAGAATGATTTTGTGATTTTTCTGTTCACACTGATGACAAGTAAGAAGACATTCTTACAAACAGCGACTCTCATTGAAGACATTTTGGGTGTTAAGAAGGAAATGATCCGGCTAGATGAAGTTCCCAATCTGAGTTCCTTAGTATCCAATTTCGATCAGCAGCAGCTTGCTAACTTCTGCAGGATCCTGGCTGTCACCATTTCAGAGATGGACACGGGGAATGACGACAAACACACGCTTCTTGCCAAAAATGCTCAGCAGAAGAAGAGTTTGAGTTTGGGGCCTTCTGCAGCTGAAATCAACCAAGCTGCTCTTCTCAGCATCCCTGGCTTTGTGGAACGGCTTTGCAAACTGGCAACTAGGAAAGTGTCAGAGTCAACGGGCACAGCCAGCTTCCTTCAAGAACTGGAGGAGTGGTACACATGGCTCGACAATGCGTTGGTGCTAGATGCCCTGATGCGAGTGGCCAATGAGGAGTCTGAACACAATCAAGCCCCCACTGTGTTCCCTTCTCTAGGCACTTCGGAGGAGGGTGGGCTGCCACACACCTCGGCCAGGGCGCAGCTGCCCCAGTCCATGAAGATTATGCATGAGATTATGTACAAACTGGAAGTGCTTTATGTCCTCTGCGTGCTGCTGATGGGGCGTCAGCGAAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTATGTCCTCTGCGTGC
59.62
ACTGTGCAGATGGCTGGTG
60.3
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTATGTCCTCTGCGTGC
59.62
CACTGTGCAGATGGCTGGT
60.3
146
PCR template sequence:
GCAGCTGCCCCAGTCCATGAAGATTATGCATGAGATTATGTACAAACTGGAAGTGCTTTATGTCCTCTGCGTGCTGCTGATGGGGCGTCAGCGAAACCAGTTCACTGAGACCTTTTTGACCGAGAGGGACAAATTGTCCAAATGGAGTGGAATTCCTCAGTTGCTCCTTAAGCTGTATGCCACCAGCCATCTGCACAGTG
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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-298-5p(1), mmu-miR-203-3p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-96-5p(1), mmu-miR-224-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-539-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGCGAAACCAGTTCACTGAGACCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRPC4AP_1050_ORF_1
1.1809
0.230946791
0.999993344
1950
ORF sequence:
ATGGAGGCTATGGCGTTTGTAACTGAAGACAGGAAATTTACTCAAGAAGCTACATACCCAAATACATATATTTTTGACTTATTTGGAGGTGTTGATCTTCTTGTAGAAATTCTTATGAGGCCTACCATCTCTATCCGGGGACAGAAACTAAAAATAAGTGACGAGATGTCGAAGGACTGCTTGAGCATCCTGTACAATACCTGTGTCTGCACGGAAGGAGTAACGAAGCGTTTGGCAGAAAAGAATGATTTTGTGATTTTTCTGTTCACACTGATGACAAGTAAGAAGACATTCTTACAAACAGCGACTCTCATTGAAGACATTTTGGGTGTTAAGAAGGAAATGATCCGGCTAGATGAAGTTCCCAATCTGAGTTCCTTAGTATCCAATTTCGATCAGCAGCAGCTTGCTAACTTCTGCAGGATCCTGGCTGTCACCATTTCAGAGATGGACACGGGGAATGACGACAAACACACGCTTCTTGCCAAAAATGCTCAGCAGAAGAAGAGTTTGAGTTTGGGGCCTTCTGCAGCTGAAATCAACCAAGCTGCTCTTCTCAGCATCCCTGGCTTTGTGGAACGGCTTTGCAAACTGGCAACTAGGAAAGTGTCAGAGTCAACGGGCACAGCCAGCTTCCTTCAAGAACTGGAGGAGTGGTACACATGGCTCGACAATGCGTTGGTGCTAGATGCCCTGATGCGAGTGGCCAATGAGGAGTCTGAACACAATCAAGCCCCCACTGTGTTCCCTTCTCTAGGCACTTCGGAGGAGGGTGGGCTGCCACACACCTCGGCCAGGGCGCAGCTGCCCCAGTCCATGAAGATTATGCATGAGATTATGTACAAACTGGAAGTGCTTTATGTCCTCTGCGTGCTGCTGATGGGGCGTCAGCGAAACCAGTTCACTGAGACCTTTTTGACCGAGAGGGACAAATTGTCCAAATGGAGTGGAATTCCTCAGTTGCTCCTTAAGCTGTATGCCACCAGCCATCTGCACAGTGACTTCGTTGAGTGCCAAAGCATTCTCAAGGAGATTTCTCCTCTTCTCTCTATGGAGGCTATGGCGTTTGTAACTGAAGACAGGAAATTTACTCAAGAAGCTACATACCCAAATACATATATTTTTGACTTATTTGGAGGTGTTGATCTTCTTGTAGAAATTCTTATGAGGCCTACCATCTCTATCCGGGGACAGAAACTAAAAATAAGTGACGAGATGTCGAAGGACTGCTTGAGCATCCTGTACAATACCTGTGTCTGCACGGAAGGAGTAACGAAGCGTTTGGCAGAAAAGAATGATTTTGTGATTTTTCTGTTCACACTGATGACAAGTAAGAAGACATTCTTACAAACAGCGACTCTCATTGAAGACATTTTGGGTGTTAAGAAGGAAATGATCCGGCTAGATGAAGTTCCCAATCTGAGTTCCTTAGTATCCAATTTCGATCAGCAGCAGCTTGCTAACTTCTGCAGGATCCTGGCTGTCACCATTTCAGAGATGGACACGGGGAATGACGACAAACACACGCTTCTTGCCAAAAATGCTCAGCAGAAGAAGAGTTTGAGTTTGGGGCCTTCTGCAGCTGAAATCAACCAAGCTGCTCTTCTCAGCATCCCTGGCTTTGTGGAACGGCTTTGCAAACTGGCAACTAGGAAAGTGTCAGAGTCAACGGGCACAGCCAGCTTCCTTCAAGAACTGGAGGAGTGGTACACATGGCTCGACAATGCGTTGGTGCTAGATGCCCTGATGCGAGTGGCCAATGAGGAGTCTGAACACAATCAAGCCCCCACTGTGTTCCCTTCTCTAGGCACTTCGGAGGAGGGTGGGCTGCCACACACCTCGGCCAGGGCGCAGCTGCCCCAGTCCATGAAGATTATGCATGAGATTATGTACAAACTGGAAGTGCTTTATGTCCTCTGCGTGCTGCTGATGGGGCGTCAGCGAAACCAG
Peptide sequence:
MEAMAFVTEDRKFTQEATYPNTYIFDLFGGVDLLVEILMRPTISIRGQKLKISDEMSKDCLSILYNTCVCTEGVTKRLAEKNDFVIFLFTLMTSKKTFLQTATLIEDILGVKKEMIRLDEVPNLSSLVSNFDQQQLANFCRILAVTISEMDTGNDDKHTLLAKNAQQKKSLSLGPSAAEINQAALLSIPGFVERLCKLATRKVSESTGTASFLQELEEWYTWLDNALVLDALMRVANEESEHNQAPTVFPSLGTSEEGGLPHTSARAQLPQSMKIMHEIMYKLEVLYVLCVLLMGRQRNQFTETFLTERDKLSKWSGIPQLLLKLYATSHLHSDFVECQSILKEISPLLSMEAMAFVTEDRKFTQEATYPNTYIFDLFGGVDLLVEILMRPTISIRGQKLKISDEMSKDCLSILYNTCVCTEGVTKRLAEKNDFVIFLFTLMTSKKTFLQTATLIEDILGVKKEMIRLDEVPNLSSLVSNFDQQQLANFCRILAVTISEMDTGNDDKHTLLAKNAQQKKSLSLGPSAAEINQAALLSIPGFVERLCKLATRKVSESTGTASFLQELEEWYTWLDNALVLDALMRVANEESEHNQAPTVFPSLGTSEEGGLPHTSARAQLPQSMKIMHEIMYKLEVLYVLCVLLMGRQRNQ
IRESfinder result
IRESfinder score
0.506046065
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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