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mmu_circTcerg1_612
Basic information of circular RNA
PanCircBase ID:
mmu_circTcerg1_612
mm39_Chr. Position ID:
chr18|42700935|42704972|+
Gene name:
Tcerg1
Transcript:
ENSMUST00000237602.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
17,18,19,20
Exon/intron offsets:
0,557,3144,3953
Genomic length:
4037
Exon/intron sizes in nt:
165,183,180,84
Flanking exon/introns:
chr18:42697298-42700935|chr18:42704972-42706324
Splice length:
612
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTAAATCAGATTTCTTTGAACTGTTATCTAATCATCACTTGGATAGTCAATCTCGATGGAGCAAAGTAAAAGACAAAGTAGAAAGTGACCCCCGATATAAAGCGGTGGATAGTTCATCAATGAGAGAAGACCTTTTCAAACAGTACATCGAGAAAATAGCCAAGAATTTAGACTCAGAAAAAGAAAAAGAGCTGGAGAGGCAAGCCCGCATTGAGGCAAGCCTTCGAGAACGGGAAAGAGAAGTTCAGAAGGCGCGCTCTGAGCAGACGAAAGAGATCGATCGGGAGAGAGAGCAGCACAAACGGGAGGAGGCTATCCAGAACTTCAAGGCTCTTCTGTCTGACATGGTACGTTCTTCAGATGTGTCCTGGTCTGATACTAGGAGGACCCTCCGGAAAGACCACCGCTGGGAATCTGGGTCCTTATTGGAAAGAGAGGAGAAAGAGAAACTTTTTAATGAACATATTGAAGCGCTTACCAAAAAGAAAAGGGAGCACTTTAGGCAGCTTCTGGACGAAACCTCTGCGATTACCTTAACATCCACGTGGAAAGAAGTGAAAAAAATAATTAAGGAAGATCCTCGGTGCATTAAGTTCTCCTCCAGTGACAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAAACCTCTGCGATTACCT
59.45
ACTTTGCTCCATCGAGATTGACT
60.06
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAAACCTCTGCGATTACCT
59.45
GCTCCATCGAGATTGACTATCCA
59.74
161
PCR template sequence:
GGACGAAACCTCTGCGATTACCTTAACATCCACGTGGAAAGAAGTGAAAAAAATAATTAAGGAAGATCCTCGGTGCATTAAGTTCTCCTCCAGTGACAGGATTAAATCAGATTTCTTTGAACTGTTATCTAATCATCACTTGGATAGTCAATCTCGATGGAGCAAAGTAAAAGACAAAGTAGAAAGTGACCCCCGATATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-211-5p(1), mmu-miR-146a-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCAGTGACAGGATTAAATCAGATT
siRNA sets
AATCTGATTTAATCCTGTC, GATTTAATCCTGTCACTGG, ATTTAATCCTGTCACTGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTCERG1_612_ORF_1
0.7709
0.256470469
0.994388302
1104
ORF sequence:
ATGAGAGAAGACCTTTTCAAACAGTACATCGAGAAAATAGCCAAGAATTTAGACTCAGAAAAAGAAAAAGAGCTGGAGAGGCAAGCCCGCATTGAGGCAAGCCTTCGAGAACGGGAAAGAGAAGTTCAGAAGGCGCGCTCTGAGCAGACGAAAGAGATCGATCGGGAGAGAGAGCAGCACAAACGGGAGGAGGCTATCCAGAACTTCAAGGCTCTTCTGTCTGACATGGTACGTTCTTCAGATGTGTCCTGGTCTGATACTAGGAGGACCCTCCGGAAAGACCACCGCTGGGAATCTGGGTCCTTATTGGAAAGAGAGGAGAAAGAGAAACTTTTTAATGAACATATTGAAGCGCTTACCAAAAAGAAAAGGGAGCACTTTAGGCAGCTTCTGGACGAAACCTCTGCGATTACCTTAACATCCACGTGGAAAGAAGTGAAAAAAATAATTAAGGAAGATCCTCGGTGCATTAAGTTCTCCTCCAGTGACAGGATTAAATCAGATTTCTTTGAACTGTTATCTAATCATCACTTGGATAGTCAATCTCGATGGAGCAAAGTAAAAGACAAAGTAGAAAGTGACCCCCGATATAAAGCGGTGGATAGTTCATCAATGAGAGAAGACCTTTTCAAACAGTACATCGAGAAAATAGCCAAGAATTTAGACTCAGAAAAAGAAAAAGAGCTGGAGAGGCAAGCCCGCATTGAGGCAAGCCTTCGAGAACGGGAAAGAGAAGTTCAGAAGGCGCGCTCTGAGCAGACGAAAGAGATCGATCGGGAGAGAGAGCAGCACAAACGGGAGGAGGCTATCCAGAACTTCAAGGCTCTTCTGTCTGACATGGTACGTTCTTCAGATGTGTCCTGGTCTGATACTAGGAGGACCCTCCGGAAAGACCACCGCTGGGAATCTGGGTCCTTATTGGAAAGAGAGGAGAAAGAGAAACTTTTTAATGAACATATTGAAGCGCTTACCAAAAAGAAAAGGGAGCACTTTAGGCAGCTTCTGGACGAAACCTCTGCGATTACCTTAACATCCACGTGGAAAGAAGTGAAAAAAATAATTAAGGAAGATCCTCGGTGCATTAAGTTCTCCTCCAGTGACAGG
Peptide sequence:
MREDLFKQYIEKIAKNLDSEKEKELERQARIEASLREREREVQKARSEQTKEIDREREQHKREEAIQNFKALLSDMVRSSDVSWSDTRRTLRKDHRWESGSLLEREEKEKLFNEHIEALTKKKREHFRQLLDETSAITLTSTWKEVKKIIKEDPRCIKFSSSDRIKSDFFELLSNHHLDSQSRWSKVKDKVESDPRYKAVDSSSMREDLFKQYIEKIAKNLDSEKEKELERQARIEASLREREREVQKARSEQTKEIDREREQHKREEAIQNFKALLSDMVRSSDVSWSDTRRTLRKDHRWESGSLLEREEKEKLFNEHIEALTKKKREHFRQLLDETSAITLTSTWKEVKKIIKEDPRCIKFSSSDR
IRESfinder result
IRESfinder score
0.612119251
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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