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mmu_circGit2_910
Basic information of circular RNA
PanCircBase ID:
mmu_circGit2_910
mm39_Chr. Position ID:
chr5|114886244|114905269|-
Gene name:
Git2
Transcript:
ENSMUST00000112185.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1059,1378,4095,5095,13389,16163,16403,18268,18912
Genomic length:
19025
Exon/intron sizes in nt:
1,12,98,73,49,46,95,13,00,00,00,000
Flanking exon/introns:
chr5:114883632-114886244|chr5:114905269-114907677
Splice length:
910
Other database IDs:
circAtlas: mmu-Git2_0015
Human Ortholog IDs:
Mature spliced Sequence:
ATGGTTGAGACCTTGTACAACAATGGTGCTAACTCTATATGGGAACACTCTCTGCTGGACCCTGCCTCTATCATGAGTGGGAGGCGGAAAGCTAACCCACAGGACAAAGTTCACCCCAATAAAGCAGAATTCATCAGAGCCAAGTATCAGATGTTAGCGTTCGTCCACCGATTGCCCTGCCGCGAGGACGACAGCGTGACGGCCAAAGATCTCAGTAAGCAACTCCATTCAAGTGTGAGAACAGGGAATCTTGAGACCTGTCTGAGACTGTTGTCTTTAGGAGCCCAAGCCAACTTCTTTCATCCTGAAAAAGGAAGCACTCCACTCCACGTCGCCTCCAAAGCAGGACAGATCTTACAGGCTGAATTGCTGGCCGTGTATGGAGCTGACCCAGGCACACAAGATTCTAGTGGGAAGACTCCTGTTGACTATGCAAGGCAAGGAGGGCACCATGAGTTGGCAGAACGCCTCATAGAAATACAGTACGAGCTGACGGATAGACTGGCCTTCTACCTCTGCGGCCGGAAACCAGATCATAAAAGCGGACAGCACTTTCTAATTCCTCAGAGGGCAGACAGCCTGGATTTGTCTGAGTTGGCAAAAGCTGCGAAGAAGAAACTTCAATCTCTGAGTAATCATTTGTTTGAAGAACTTGCCATGGATGTGTACGACGAAGTTGACAGGCGAGAGACTGACGCAGTCTGGCTTGCCACGCAGAACCACAGTACCTTGGTAACCGAGACGACCGTCGTCCCTTTCCTTCCGGTCAACCCTGAGTACTCCTCCACACGAAACCAGGGCAGACAGAAATTAGCTCGGTTTAACGCCCACGAGTTTGCTACGCTGGTCATCGACATCCTCAGTGATGCCAAGAGGAGACAACAGGGCAGTCCTCTGTCCAGGTCAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGACATCCTCAGTGATGCCA
59.82
TCCGCCTCCCACTCATGATA
60.11
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTAACGCCCACGAGTTTGC
59.69
GTCCAGCAGAGAGTGTTCCC
60.04
151
PCR template sequence:
TTAGCTCGGTTTAACGCCCACGAGTTTGCTACGCTGGTCATCGACATCCTCAGTGATGCCAAGAGGAGACAACAGGGCAGTCCTCTGTCCAGGTCAAAAGATGGTTGAGACCTTGTACAACAATGGTGCTAACTCTATATGGGAACACTCTCTGCTGGACCCTGCCTCTATCATGAGTGGGAGGCGGAAAGCTAACCCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-miR-93-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-106b-5p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-298-5p(1), mmu-miR-132-3p(1), mmu-miR-709(1), mmu-let-7d-5p(1), mmu-miR-153-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-212-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-1904(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCAGGTCAAAAGATGGTTGAGACCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGIT2_910_ORF_1
1.0172
0.232355532
0.988345704
954
ORF sequence:
ATGCCAAGAGGAGACAACAGGGCAGTCCTCTGTCCAGGTCAAAAGATGGTTGAGACCTTGTACAACAATGGTGCTAACTCTATATGGGAACACTCTCTGCTGGACCCTGCCTCTATCATGAGTGGGAGGCGGAAAGCTAACCCACAGGACAAAGTTCACCCCAATAAAGCAGAATTCATCAGAGCCAAGTATCAGATGTTAGCGTTCGTCCACCGATTGCCCTGCCGCGAGGACGACAGCGTGACGGCCAAAGATCTCAGTAAGCAACTCCATTCAAGTGTGAGAACAGGGAATCTTGAGACCTGTCTGAGACTGTTGTCTTTAGGAGCCCAAGCCAACTTCTTTCATCCTGAAAAAGGAAGCACTCCACTCCACGTCGCCTCCAAAGCAGGACAGATCTTACAGGCTGAATTGCTGGCCGTGTATGGAGCTGACCCAGGCACACAAGATTCTAGTGGGAAGACTCCTGTTGACTATGCAAGGCAAGGAGGGCACCATGAGTTGGCAGAACGCCTCATAGAAATACAGTACGAGCTGACGGATAGACTGGCCTTCTACCTCTGCGGCCGGAAACCAGATCATAAAAGCGGACAGCACTTTCTAATTCCTCAGAGGGCAGACAGCCTGGATTTGTCTGAGTTGGCAAAAGCTGCGAAGAAGAAACTTCAATCTCTGAGTAATCATTTGTTTGAAGAACTTGCCATGGATGTGTACGACGAAGTTGACAGGCGAGAGACTGACGCAGTCTGGCTTGCCACGCAGAACCACAGTACCTTGGTAACCGAGACGACCGTCGTCCCTTTCCTTCCGGTCAACCCTGAGTACTCCTCCACACGAAACCAGGGCAGACAGAAATTAGCTCGGTTTAACGCCCACGAGTTTGCTACGCTGGTCATCGACATCCTCAGTGATGCCAAGAGGAGACAACAGGGCAGTCCTCTGTCCAGGTCAAAA
Peptide sequence:
MPRGDNRAVLCPGQKMVETLYNNGANSIWEHSLLDPASIMSGRRKANPQDKVHPNKAEFIRAKYQMLAFVHRLPCREDDSVTAKDLSKQLHSSVRTGNLETCLRLLSLGAQANFFHPEKGSTPLHVASKAGQILQAELLAVYGADPGTQDSSGKTPVDYARQGGHHELAERLIEIQYELTDRLAFYLCGRKPDHKSGQHFLIPQRADSLDLSELAKAAKKKLQSLSNHLFEELAMDVYDEVDRRETDAVWLATQNHSTLVTETTVVPFLPVNPEYSSTRNQGRQKLARFNAHEFATLVIDILSDAKRRQQGSPLSRSK
IRESfinder result
IRESfinder score
0.467033164
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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