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mmu_circCit_1233
Basic information of circular RNA
PanCircBase ID:
mmu_circCit_1233
mm39_Chr. Position ID:
chr5|116065894|116090708|+
Gene name:
Cit
Transcript:
ENSMUST00000141101.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
12,13,14,15,16,17,18,19,20,21
Exon/intron offsets:
0,5562,5985,6743,8893,14001,17949,18994,20071,24616
Genomic length:
24814
Exon/intron sizes in nt:
12,01,71,51,54,14,19,60,00,00,00,00,000
Flanking exon/introns:
chr5:116064661-116065894|chr5:116090708-116099202
Splice length:
1233
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214921, circAtlas: mmu-Cit_0039
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AGCTTAAAGCGAAGTTTGGAGCAAGCGCGGATGGAGGTGTCCCAGGAGGATGACAAAGCTCTGCAGCTTCTCCACGACATCCGAGAGCAGAGCCGGAAGCTCCAGGAGATCAAGGAGCAGGAGTACCAGGCTCAGGTGGAGGAGATGAGGCTGATGATGAATCAGCTGGAAGAAGACCTGGTGTCAGCCCGCAGACGCAGCGATCTCTACGAGTCTGAGCTGAGGGAGTCTCGGCTTGCCGCCGAGGAATTCAAGCGGAAGGCAAACGAATGTCAGCACAAACTGATGAAGGCTAAGGACCAAGGGAAGCCTGAAGTGGGAGAATATTCCAAACTGGAGAAGATCAATGCTGAGCAGCAGCTGAAGATCCAGGAGCTCCAGGAGAAGCTGGAGAAGGCTGTAAAAGCCAGCACAGAGGCCACCGAGCTCCTGCAGAATATCCGCCAGGCAAAGGAGCGAGCAGAGCGGGAGCTAGAGAAGCTACACAACCGGGAAGACTCCTCCGAGGGCATCAAAAAGAAGCTGGTGGAAGCCGAGGAGCTGGAGGAGAAACATCGGGAGGCTCAGGTCTCAGCTCAACATCTAGAAGTACACTTGAAACAGAAAGAACAGCACTACGAGGAAAAGATCAAGGTATTGGACAATCAGATAAAGAAGGACCTGGCCGACAAGGAGAGCCTGGAGAACATGATGCAGAGACACGAGGAGGAGGCCCACGAGAAGGGCAAGATCCTCAGCGAGCAGAAGGCGATGATCAACGCGATGGATTCCAAGATCCGATCCCTGGAGCAGAGGATCGTGGAGCTGTCGGAAGCCAACAAGCTTGCGGCAAACAGCAGTCTCTTCACCCAGAGGAACATGAAGGCCCAGGAAGAGATGATCTCAGAACTCAGGCAGCAGAAATTTTACCTGGAGACGCAGGCCGGAAAGCTGGAGGCCCAGAACCGAAAGCTGGAAGAGCAACTGGAGAAGATCAGCCACCAAGATCACAGTGACAAGAGTCGGCTGCTGGAGCTGGAAACAAGGCTGAGGGAGGTCAGCCTGGAGCACGAGGAGCAGAAGCTGGAGCTGAAGCGGCAGCTCACGGAGCTGCAGCTGTCCCTGCAGGAGCGCGAGTCCCAGCTGACGGCCCTGCAGGCCGCCCGGGCAGCGCTGGAGAGCCAGCTCCGCCAGGCGAAGACAGAGCTGGAGGAGACAACCGCGGAAGCGGAGGAGGAGATCCAGGCGCTCACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAGCTGGAGGAGACAACC
59.75
CTCTGCTCTCGGATGTCGTG
60.25
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACAGAGCTGGAGGAGACA
59.59
CTCTGCTCTCGGATGTCGTG
60.25
148
PCR template sequence:
GCAGGCCGCCCGGGCAGCGCTGGAGAGCCAGCTCCGCCAGGCGAAGACAGAGCTGGAGGAGACAACCGCGGAAGCGGAGGAGGAGATCCAGGCGCTCACGAGCTTAAAGCGAAGTTTGGAGCAAGCGCGGATGGAGGTGTCCCAGGAGGATGACAAAGCTCTGCAGCTTCTCCACGACATCCGAGAGCAGAGCCGGAAGC
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-205-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGGCGCTCACGAGCTTAAAGCGAA
siRNA sets
TAAGCTCGTGAGCGCCTGG, TTTAAGCTCGTGAGCGCCT, TTAAGCTCGTGAGCGCCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCIT_1233_ORF_1
1.2381
0.709523983
0.999999974
2436
ORF sequence:
ATGGAGGTGTCCCAGGAGGATGACAAAGCTCTGCAGCTTCTCCACGACATCCGAGAGCAGAGCCGGAAGCTCCAGGAGATCAAGGAGCAGGAGTACCAGGCTCAGGTGGAGGAGATGAGGCTGATGATGAATCAGCTGGAAGAAGACCTGGTGTCAGCCCGCAGACGCAGCGATCTCTACGAGTCTGAGCTGAGGGAGTCTCGGCTTGCCGCCGAGGAATTCAAGCGGAAGGCAAACGAATGTCAGCACAAACTGATGAAGGCTAAGGACCAAGGGAAGCCTGAAGTGGGAGAATATTCCAAACTGGAGAAGATCAATGCTGAGCAGCAGCTGAAGATCCAGGAGCTCCAGGAGAAGCTGGAGAAGGCTGTAAAAGCCAGCACAGAGGCCACCGAGCTCCTGCAGAATATCCGCCAGGCAAAGGAGCGAGCAGAGCGGGAGCTAGAGAAGCTACACAACCGGGAAGACTCCTCCGAGGGCATCAAAAAGAAGCTGGTGGAAGCCGAGGAGCTGGAGGAGAAACATCGGGAGGCTCAGGTCTCAGCTCAACATCTAGAAGTACACTTGAAACAGAAAGAACAGCACTACGAGGAAAAGATCAAGGTATTGGACAATCAGATAAAGAAGGACCTGGCCGACAAGGAGAGCCTGGAGAACATGATGCAGAGACACGAGGAGGAGGCCCACGAGAAGGGCAAGATCCTCAGCGAGCAGAAGGCGATGATCAACGCGATGGATTCCAAGATCCGATCCCTGGAGCAGAGGATCGTGGAGCTGTCGGAAGCCAACAAGCTTGCGGCAAACAGCAGTCTCTTCACCCAGAGGAACATGAAGGCCCAGGAAGAGATGATCTCAGAACTCAGGCAGCAGAAATTTTACCTGGAGACGCAGGCCGGAAAGCTGGAGGCCCAGAACCGAAAGCTGGAAGAGCAACTGGAGAAGATCAGCCACCAAGATCACAGTGACAAGAGTCGGCTGCTGGAGCTGGAAACAAGGCTGAGGGAGGTCAGCCTGGAGCACGAGGAGCAGAAGCTGGAGCTGAAGCGGCAGCTCACGGAGCTGCAGCTGTCCCTGCAGGAGCGCGAGTCCCAGCTGACGGCCCTGCAGGCCGCCCGGGCAGCGCTGGAGAGCCAGCTCCGCCAGGCGAAGACAGAGCTGGAGGAGACAACCGCGGAAGCGGAGGAGGAGATCCAGGCGCTCACGAGCTTAAAGCGAAGTTTGGAGCAAGCGCGGATGGAGGTGTCCCAGGAGGATGACAAAGCTCTGCAGCTTCTCCACGACATCCGAGAGCAGAGCCGGAAGCTCCAGGAGATCAAGGAGCAGGAGTACCAGGCTCAGGTGGAGGAGATGAGGCTGATGATGAATCAGCTGGAAGAAGACCTGGTGTCAGCCCGCAGACGCAGCGATCTCTACGAGTCTGAGCTGAGGGAGTCTCGGCTTGCCGCCGAGGAATTCAAGCGGAAGGCAAACGAATGTCAGCACAAACTGATGAAGGCTAAGGACCAAGGGAAGCCTGAAGTGGGAGAATATTCCAAACTGGAGAAGATCAATGCTGAGCAGCAGCTGAAGATCCAGGAGCTCCAGGAGAAGCTGGAGAAGGCTGTAAAAGCCAGCACAGAGGCCACCGAGCTCCTGCAGAATATCCGCCAGGCAAAGGAGCGAGCAGAGCGGGAGCTAGAGAAGCTACACAACCGGGAAGACTCCTCCGAGGGCATCAAAAAGAAGCTGGTGGAAGCCGAGGAGCTGGAGGAGAAACATCGGGAGGCTCAGGTCTCAGCTCAACATCTAGAAGTACACTTGAAACAGAAAGAACAGCACTACGAGGAAAAGATCAAGGTATTGGACAATCAGATAAAGAAGGACCTGGCCGACAAGGAGAGCCTGGAGAACATGATGCAGAGACACGAGGAGGAGGCCCACGAGAAGGGCAAGATCCTCAGCGAGCAGAAGGCGATGATCAACGCGATGGATTCCAAGATCCGATCCCTGGAGCAGAGGATCGTGGAGCTGTCGGAAGCCAACAAGCTTGCGGCAAACAGCAGTCTCTTCACCCAGAGGAACATGAAGGCCCAGGAAGAGATGATCTCAGAACTCAGGCAGCAGAAATTTTACCTGGAGACGCAGGCCGGAAAGCTGGAGGCCCAGAACCGAAAGCTGGAAGAGCAACTGGAGAAGATCAGCCACCAAGATCACAGTGACAAGAGTCGGCTGCTGGAGCTGGAAACAAGGCTGAGGGAGGTCAGCCTGGAGCACGAGGAGCAGAAGCTGGAGCTGAAGCGGCAGCTCACGGAGCTGCAGCTGTCCCTGCAGGAGCGCGAGTCCCAGCTGACGGCCCTGCAGGCCGCCCGGGCAGCGCTGGAGAGCCAGCTCCGCCAGGCGAAGACAGAGCTGGAGGAGACAACCGCGGAAGCGGAGGAGGAGATCCAGGCGCTCACG
Peptide sequence:
MEVSQEDDKALQLLHDIREQSRKLQEIKEQEYQAQVEEMRLMMNQLEEDLVSARRRSDLYESELRESRLAAEEFKRKANECQHKLMKAKDQGKPEVGEYSKLEKINAEQQLKIQELQEKLEKAVKASTEATELLQNIRQAKERAERELEKLHNREDSSEGIKKKLVEAEELEEKHREAQVSAQHLEVHLKQKEQHYEEKIKVLDNQIKKDLADKESLENMMQRHEEEAHEKGKILSEQKAMINAMDSKIRSLEQRIVELSEANKLAANSSLFTQRNMKAQEEMISELRQQKFYLETQAGKLEAQNRKLEEQLEKISHQDHSDKSRLLELETRLREVSLEHEEQKLELKRQLTELQLSLQERESQLTALQAARAALESQLRQAKTELEETTAEAEEEIQALTSLKRSLEQARMEVSQEDDKALQLLHDIREQSRKLQEIKEQEYQAQVEEMRLMMNQLEEDLVSARRRSDLYESELRESRLAAEEFKRKANECQHKLMKAKDQGKPEVGEYSKLEKINAEQQLKIQELQEKLEKAVKASTEATELLQNIRQAKERAERELEKLHNREDSSEGIKKKLVEAEELEEKHREAQVSAQHLEVHLKQKEQHYEEKIKVLDNQIKKDLADKESLENMMQRHEEEAHEKGKILSEQKAMINAMDSKIRSLEQRIVELSEANKLAANSSLFTQRNMKAQEEMISELRQQKFYLETQAGKLEAQNRKLEEQLEKISHQDHSDKSRLLELETRLREVSLEHEEQKLELKRQLTELQLSLQERESQLTALQAARAALESQLRQAKTELEETTAEAEEEIQALT
IRESfinder result
IRESfinder score
0.162241019
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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