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mmu_circThada_963
Basic information of circular RNA
PanCircBase ID:
mmu_circThada_963
mm39_Chr. Position ID:
chr17|84617314|84723815|-
Gene name:
Thada
Transcript:
ENSMUST00000047524.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
29,28,27,26,25,24,23,22
Exon/intron offsets:
0,24139,26906,76624,83473,85176,88308,106391
Genomic length:
106501
Exon/intron sizes in nt:
1,69,13,29,09,21,23,11,00,00,000
Flanking exon/introns:
chr17:84580252-84617314|chr17:84723815-84730459
Splice length:
963
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31606, circAtlas: mmu-Thada_0018
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_91859
Human Ortholog IDs:
Mature spliced Sequence:
GTTAAAGAAATAGGAGATTACTTTAAACAACACCTTTTGCAGTCCAGACACAGAGGAGCATTTGAACTGGCTTATACTGGTTTTGTGAAACTCACTGAAATATTGAACAGGTGCTCTAATGTGAGTCTGCAAAAGCTGCCAGAGCAGTGGCTGCGGAGCGTTCTGGAGGAAATTAAAGGCAGTGATCCCTCATCCAAACTTTGTGCTACAAGGCGCAGTGCTGGGATTCCCTTCTACATACAGGCATTGTTGGCATCTGAACCAAAGAAGAGTAGAATGGACTTGCTGAAAATAACAATGAGGGAGCTGATCTCCTTGGCTTTGTCTGCAGATGACTCAAAGGGCAGAGTCCCTCAGGTTCATGCTTTAAACATTCTCCGAGCCTTGTTCAGAGACACCCGTCTGGGAGAAAACATTATCCCCTATGTTGCTGGTGGAGCTAAGGCTGCAATTCTGGGCTTTACATCCCCTGTCTGGGCAGTGAGAAATTCATCCACACTTCTCTTTAGTTCCTTGATCACAAGAGTTTTTGGCGTTAAGAGAGGAAAGGATGAAGTTTCCAAAACAAATAGAATGACAGGAAGAGAGTTTTTCTCTCGTTTCCCAGAACTGTACCCATTTCTTCTCAAACAGTTGGAAACTGTGGCCAGTACAGTAGACAGTGAACTGGGAGAGCCTGATCGCCACCCTGGCATGTTCCTCTTACTCCTGGTGTTGGAGAGACTGTACCCATCGCCGATGGACGGCACATCATCTGCGCTCAGCTTGGCCCCTTTTGTTCCTTTCATTATCAGGTGTGGTCGCTCACCTATTTACCGCTCCCGGGAAATGGCAGCTCGTGCGTTGGTCCCCTTCATTATGATAGACCAAATACCGAGTACCCTCTGTGCTCTACTGAACTCACTCCCCAACAGCACTGACCAGTGTTTCCGACAAAACCACATTCATGGGACACTTCTGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACCGAGTACCCTCTGTGCT
59.67
TGCTCCTCTGTGTCTGGACT
60.18
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACCGAGTACCCTCTGTGCT
59.67
CTCCTCTGTGTCTGGACTGC
59.75
150
PCR template sequence:
AGACCAAATACCGAGTACCCTCTGTGCTCTACTGAACTCACTCCCCAACAGCACTGACCAGTGTTTCCGACAAAACCACATTCATGGGACACTTCTGCAAGTTAAAGAAATAGGAGATTACTTTAAACAACACCTTTTGCAGTCCAGACACAGAGGAGCATTTGAACTGGCTTATACTGGTTTTGTGAAACTCACTGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-351-5p(1), mmu-miR-22-3p(1), mmu-miR-541-5p(1), mmu-miR-324-3p(1), mmu-miR-452-3p(1), mmu-miR-350-3p(1), mmu-miR-490-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACACTTCTGCAAGTTAAAGAAATAG
siRNA sets
TATTTCTTTAACTTGCAGA, TTTCTTTAACTTGCAGAAG, CTATTTCTTTAACTTGCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTHADA_963_ORF_1
0.7595
0.058802518
0.999744395
1650
ORF sequence:
ATGGACTTGCTGAAAATAACAATGAGGGAGCTGATCTCCTTGGCTTTGTCTGCAGATGACTCAAAGGGCAGAGTCCCTCAGGTTCATGCTTTAAACATTCTCCGAGCCTTGTTCAGAGACACCCGTCTGGGAGAAAACATTATCCCCTATGTTGCTGGTGGAGCTAAGGCTGCAATTCTGGGCTTTACATCCCCTGTCTGGGCAGTGAGAAATTCATCCACACTTCTCTTTAGTTCCTTGATCACAAGAGTTTTTGGCGTTAAGAGAGGAAAGGATGAAGTTTCCAAAACAAATAGAATGACAGGAAGAGAGTTTTTCTCTCGTTTCCCAGAACTGTACCCATTTCTTCTCAAACAGTTGGAAACTGTGGCCAGTACAGTAGACAGTGAACTGGGAGAGCCTGATCGCCACCCTGGCATGTTCCTCTTACTCCTGGTGTTGGAGAGACTGTACCCATCGCCGATGGACGGCACATCATCTGCGCTCAGCTTGGCCCCTTTTGTTCCTTTCATTATCAGGTGTGGTCGCTCACCTATTTACCGCTCCCGGGAAATGGCAGCTCGTGCGTTGGTCCCCTTCATTATGATAGACCAAATACCGAGTACCCTCTGTGCTCTACTGAACTCACTCCCCAACAGCACTGACCAGTGTTTCCGACAAAACCACATTCATGGGACACTTCTGCAAGTTAAAGAAATAGGAGATTACTTTAAACAACACCTTTTGCAGTCCAGACACAGAGGAGCATTTGAACTGGCTTATACTGGTTTTGTGAAACTCACTGAAATATTGAACAGGTGCTCTAATGTGAGTCTGCAAAAGCTGCCAGAGCAGTGGCTGCGGAGCGTTCTGGAGGAAATTAAAGGCAGTGATCCCTCATCCAAACTTTGTGCTACAAGGCGCAGTGCTGGGATTCCCTTCTACATACAGGCATTGTTGGCATCTGAACCAAAGAAGAGTAGAATGGACTTGCTGAAAATAACAATGAGGGAGCTGATCTCCTTGGCTTTGTCTGCAGATGACTCAAAGGGCAGAGTCCCTCAGGTTCATGCTTTAAACATTCTCCGAGCCTTGTTCAGAGACACCCGTCTGGGAGAAAACATTATCCCCTATGTTGCTGGTGGAGCTAAGGCTGCAATTCTGGGCTTTACATCCCCTGTCTGGGCAGTGAGAAATTCATCCACACTTCTCTTTAGTTCCTTGATCACAAGAGTTTTTGGCGTTAAGAGAGGAAAGGATGAAGTTTCCAAAACAAATAGAATGACAGGAAGAGAGTTTTTCTCTCGTTTCCCAGAACTGTACCCATTTCTTCTCAAACAGTTGGAAACTGTGGCCAGTACAGTAGACAGTGAACTGGGAGAGCCTGATCGCCACCCTGGCATGTTCCTCTTACTCCTGGTGTTGGAGAGACTGTACCCATCGCCGATGGACGGCACATCATCTGCGCTCAGCTTGGCCCCTTTTGTTCCTTTCATTATCAGGTGTGGTCGCTCACCTATTTACCGCTCCCGGGAAATGGCAGCTCGTGCGTTGGTCCCCTTCATTATGATAGACCAAATACCGAGTACCCTCTGTGCTCTACTGAACTCACTCCCCAACAGCACTGACCAGTGTTTCCGACAAAACCACATTCATGGGACACTTCTGCAA
Peptide sequence:
MDLLKITMRELISLALSADDSKGRVPQVHALNILRALFRDTRLGENIIPYVAGGAKAAILGFTSPVWAVRNSSTLLFSSLITRVFGVKRGKDEVSKTNRMTGREFFSRFPELYPFLLKQLETVASTVDSELGEPDRHPGMFLLLLVLERLYPSPMDGTSSALSLAPFVPFIIRCGRSPIYRSREMAARALVPFIMIDQIPSTLCALLNSLPNSTDQCFRQNHIHGTLLQVKEIGDYFKQHLLQSRHRGAFELAYTGFVKLTEILNRCSNVSLQKLPEQWLRSVLEEIKGSDPSSKLCATRRSAGIPFYIQALLASEPKKSRMDLLKITMRELISLALSADDSKGRVPQVHALNILRALFRDTRLGENIIPYVAGGAKAAILGFTSPVWAVRNSSTLLFSSLITRVFGVKRGKDEVSKTNRMTGREFFSRFPELYPFLLKQLETVASTVDSELGEPDRHPGMFLLLLVLERLYPSPMDGTSSALSLAPFVPFIIRCGRSPIYRSREMAARALVPFIMIDQIPSTLCALLNSLPNSTDQCFRQNHIHGTLLQ
IRESfinder result
IRESfinder score
0.718950546
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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