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mmu_circTrpm7_1376
Basic information of circular RNA
PanCircBase ID:
mmu_circTrpm7_1376
mm39_Chr. Position ID:
chr2|126667331|126679355|-
Gene name:
Trpm7
Transcript:
ENSMUST00000103224.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
19,18,17,16,15,14,13,12,11
Exon/intron offsets:
0,222,1303,3598,4717,5785,8276,10044,11923
Genomic length:
12024
Exon/intron sizes in nt:
1,44,15,62,29,28,11,35,00,00,00,00,000
Flanking exon/introns:
chr2:126666024-126667331|chr2:126679355-126682663
Splice length:
1376
Other database IDs:
circAtlas: mmu-Trpm7_0018
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_130658
Human Ortholog IDs:
Mature spliced Sequence:
GTACTAATGCATCTGCATTTGACCAGCTTATCCTTACACTGGCATGGGACAGAGTTGATATTGCCAAAAATCATGTATTTGTTTATGGACAACAGTGGCTGGTTGGATCCTTGGAACAGGCTATGCTTGATGCTCTTGTAATGGACAGAGTTTCATTTGTAAAACTTCTTATTGAAAACGGAGTAAGCATGCATAAATTCCTTACCATTCCCAGACTGGAAGAACTTTATAACACTAAACAAGGTCCAACCAATCCAATGTTGTTCCATCTCATTCGGGATGTCAAGCAGGGTAATCTCCCCCCGGGGTACAAGATCACTTTAATTGATATAGGACTTGTGATTGAGTATCTCATGGGAGGAACCTACAGATGCACATACACACGAAAACGTTTTCGATTGATATATAATAGTCTTGGTGGAAATAACCGGAGGTCAGGTCGAAATACCTCCAGCAGCACCCCTCAGTTGCGAAAGAGTCATGAAACTTTTGGCAATAGAGCTGATAAAAAGGAAAAAATGAGACACAATCATTTCATTAAAACAGCCCAACCCTACAGACCAAAGATGGATGCATCTATGGAAGAAGGAAAGAAGAAAAGAACCAAAGATGAAATTGTAGATATAGATGATCCAGAGACCAAGCGCTTTCCTTATCCTCTTAATGAATTATTAATTTGGGCTTGCCTTATGAAGAGGCAGGTCATGGCCCGCTTTTTATGGCAGCATGGTGAAGAATCAATGGCTAAAGCATTAGTTGCCTGTAAAATCTATCGTTCAATGGCTTATGAGGCAAAGCAGAGTGACCTGGTAGATGATACTTCAGAGGAACTGAAGCAGTATTCCAATGATTTTGGCCAACTGGCAGTTGAATTACTGGAACAGTCCTTCAGACAGGATGAAACGATGGCTATGAAATTACTCACTTATGAACTCAAAAACTGGAGTAATTCAACCTGCCTCAAGTTAGCAGTTTCTTCAAGACTTAGACCTTTTGTAGCTCACACTTGTACACAGATGTTGTTATCTGATATGTGGATGGGACGGCTGAATATGAGAAAAAATTCCTGGTATAAGGTCATATTAAGCATTTTAGTTCCACCTGCCATATTAATGCTAGAGTATAAAACCAAGGCTGAAATGTCCCATATCCCACAATCTCAAGATGCTCATCAAATGACGATGGAGGATAGTGAAAACAATTTTCACAACATAACAGAAGAGATACCCATGGAAGTATTTAAAGAAGTAAAGATTTTGGACAGCAGTGATGGAAAGAATGAAATGGAGATACATATTAAATCAAAAAAGCTTCCAATCACACGAAAATTTTATGCCTTTTATCATGCACCAATTGTAAAGTTCTGGTTTAACACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTTTATCATGCACCAATTGT
60.02
AGCCACTGTTGTCCATAAACA
57.78
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTTTATCATGCACCAA
55.9
AGCCACTGTTGTCCATAAACA
57.78
143
PCR template sequence:
GAATGAAATGGAGATACATATTAAATCAAAAAAGCTTCCAATCACACGAAAATTTTATGCCTTTTATCATGCACCAATTGTAAAGTTCTGGTTTAACACAGTACTAATGCATCTGCATTTGACCAGCTTATCCTTACACTGGCATGGGACAGAGTTGATATTGCCAAAAATCATGTATTTGTTTATGGACAACAGTGGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(2), mmu-miR-335-3p(2), mmu-miR-199a-5p(1), mmu-miR-335-5p(1), mmu-miR-203-3p(1), mmu-miR-22-3p(1), mmu-miR-182-5p(1), mmu-miR-297a-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGTTTAACACAGTACTAATGCATC
siRNA sets
ATTAGTACTGTGTTAAACC, CATTAGTACTGTGTTAAAC, TTAGTACTGTGTTAAACCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRPM7_1376_ORF_1
0.6991
0.004685677
0.997713792
1395
ORF sequence:
ATGCTTGATGCTCTTGTAATGGACAGAGTTTCATTTGTAAAACTTCTTATTGAAAACGGAGTAAGCATGCATAAATTCCTTACCATTCCCAGACTGGAAGAACTTTATAACACTAAACAAGGTCCAACCAATCCAATGTTGTTCCATCTCATTCGGGATGTCAAGCAGGGTAATCTCCCCCCGGGGTACAAGATCACTTTAATTGATATAGGACTTGTGATTGAGTATCTCATGGGAGGAACCTACAGATGCACATACACACGAAAACGTTTTCGATTGATATATAATAGTCTTGGTGGAAATAACCGGAGGTCAGGTCGAAATACCTCCAGCAGCACCCCTCAGTTGCGAAAGAGTCATGAAACTTTTGGCAATAGAGCTGATAAAAAGGAAAAAATGAGACACAATCATTTCATTAAAACAGCCCAACCCTACAGACCAAAGATGGATGCATCTATGGAAGAAGGAAAGAAGAAAAGAACCAAAGATGAAATTGTAGATATAGATGATCCAGAGACCAAGCGCTTTCCTTATCCTCTTAATGAATTATTAATTTGGGCTTGCCTTATGAAGAGGCAGGTCATGGCCCGCTTTTTATGGCAGCATGGTGAAGAATCAATGGCTAAAGCATTAGTTGCCTGTAAAATCTATCGTTCAATGGCTTATGAGGCAAAGCAGAGTGACCTGGTAGATGATACTTCAGAGGAACTGAAGCAGTATTCCAATGATTTTGGCCAACTGGCAGTTGAATTACTGGAACAGTCCTTCAGACAGGATGAAACGATGGCTATGAAATTACTCACTTATGAACTCAAAAACTGGAGTAATTCAACCTGCCTCAAGTTAGCAGTTTCTTCAAGACTTAGACCTTTTGTAGCTCACACTTGTACACAGATGTTGTTATCTGATATGTGGATGGGACGGCTGAATATGAGAAAAAATTCCTGGTATAAGGTCATATTAAGCATTTTAGTTCCACCTGCCATATTAATGCTAGAGTATAAAACCAAGGCTGAAATGTCCCATATCCCACAATCTCAAGATGCTCATCAAATGACGATGGAGGATAGTGAAAACAATTTTCACAACATAACAGAAGAGATACCCATGGAAGTATTTAAAGAAGTAAAGATTTTGGACAGCAGTGATGGAAAGAATGAAATGGAGATACATATTAAATCAAAAAAGCTTCCAATCACACGAAAATTTTATGCCTTTTATCATGCACCAATTGTAAAGTTCTGGTTTAACACAGTACTAATGCATCTGCATTTGACCAGCTTATCCTTACACTGGCATGGGACAGAGTTGATATTGCCAAAAATCATGTATTTGTTTATGGACAACAGTGGCTGGTTGGATCCTTGGAACAGGCTATGCTTGATGCTCTTGTAA
Peptide sequence:
MLDALVMDRVSFVKLLIENGVSMHKFLTIPRLEELYNTKQGPTNPMLFHLIRDVKQGNLPPGYKITLIDIGLVIEYLMGGTYRCTYTRKRFRLIYNSLGGNNRRSGRNTSSSTPQLRKSHETFGNRADKKEKMRHNHFIKTAQPYRPKMDASMEEGKKKRTKDEIVDIDDPETKRFPYPLNELLIWACLMKRQVMARFLWQHGEESMAKALVACKIYRSMAYEAKQSDLVDDTSEELKQYSNDFGQLAVELLEQSFRQDETMAMKLLTYELKNWSNSTCLKLAVSSRLRPFVAHTCTQMLLSDMWMGRLNMRKNSWYKVILSILVPPAILMLEYKTKAEMSHIPQSQDAHQMTMEDSENNFHNITEEIPMEVFKEVKILDSSDGKNEMEIHIKSKKLPITRKFYAFYHAPIVKFWFNTVLMHLHLTSLSLHWHGTELILPKIMYLFMDNSGWLDPWNRLCLMLL
IRESfinder result
IRESfinder score
0.639038706
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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