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mmu_circAhi1_1200
Basic information of circular RNA
PanCircBase ID:
mmu_circAhi1_1200
mm39_Chr. Position ID:
chr10|20852895|20893932|+
Gene name:
Ahi1
Transcript:
ENSMUST00000105525.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,2383,4327,7308,9973,11547,23509,30755,40916
Genomic length:
41037
Exon/intron sizes in nt:
1,24,23,01,07,11,91,31,00,00,00,00,000
Flanking exon/introns:
chr10:20848055-20852895|chr10:20893932-20917084
Splice length:
1200
Other database IDs:
CIRCpedia: MMU_CIRCpedia_13114, circAtlas: mmu-Ahi1_0001
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TATATGAAATTCCTTCTGGACGTTTTATGAGAGAATTGTGTGGCCACCTCAATATCATTTATGATCTCGACTGGTCAAAAGACGATCGCTATCTCGTTACTTCATCCTCTGACGGCACTGCCAGAGTTTGGAAGAATGAAATCAATAGCACGAGCACGTTCAGAGTCTTACCTCACCCCTCCTTCGTCTACACGGCTAAATTCCACCCAGCCACACGGGAGCTGGTGGTTACAGGATGCTACGACTCTATGATAAGGATTTGGAAAATTGATGCAAGGGAGGATGCTGCCATATTAGTGCGCCAGTTGGATGTGCACAAGAGCTTTGTCAACTCCATCTGTTTTGACGATGAAGGTCACCACATGTACTCAGGAGACTGCATCGGGGTCATCGTTGTCTGGGACACGTACGTCAAAGTGAATGATGTGCAACACTCCGTGCGCCACTGGACGATAAATAAGGAAATTAAGGAAACTGAATTCAGGGGAGTTCCAATAAGTTACCTGGAGGTTCATCCCAATGGAAAGCGTTTGCTAATCCACACCAAAGACAGTACTCTGAGGATTATGGACCTGCGGATATTGGCAGCCAGGAAATTTGTGGGTGCAGCAAATTACCGTGAGAAGATCCATAGCACCTTGACGCCGTGCGGGACTCTGCTCTTTTCTGGGAGTGAGGATGGGATAGTATACGTTTGGAACCCAGAGACAGGAGAACAAGTGGCAATGTACTCTGACCTGCCATTCAAGTCCACAATCCGAGACATCTCTTACCACCCCCTGGAGAATATGGTTGCCTTCTGTGCCTTTGGACAGAGCGAGCCGATTCTTCTTTATATTTATGATTTCCAGGTAGCCCAGCAGGAGGCTGAAATGTTGAAACGCTATAGTGGGACACTCCCGTTGCCTGGGATACATCAGAGTGAGGATGCTTTATGCACCTGCCCTAAGCTGCCCCAGCAGGGCTCTTTTCAGATTGATGAATTTGTCAACACTGAAAATAGTTCATCAAGAAAGATTCAACTTGTGAAACAGAGACTCGAAACTGTCACAGAGGTGATACGATCCTGTGCTGCAAAAGTCAACAAAAATCTCTCAATGACTTCGCCACCACCAGGCCCTGCAAAGAAGCCCAGGGTAAAGCAGTCGTTCGTGCTGACCACTGATGAGATCATACATCAGTTTGGACTCCCCCAGACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAGGGTAAAGCAGTCGTT
59.96
AGCGATCGTCTTTTGACCAGT
60
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCAAAGAAGCCCAGGGTA
59.96
AGCGATCGTCTTTTGACCAGT
60
171
PCR template sequence:
ACTTCGCCACCACCAGGCCCTGCAAAGAAGCCCAGGGTAAAGCAGTCGTTCGTGCTGACCACTGATGAGATCATACATCAGTTTGGACTCCCCCAGACTGTATATGAAATTCCTTCTGGACGTTTTATGAGAGAATTGTGTGGCCACCTCAATATCATTTATGATCTCGACTGGTCAAAAGACGATCGCTATCTCGTTAC
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-370-3p(2), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-122-5p(1), mmu-miR-34b-5p(1), mmu-miR-499-5p(1), mmu-miR-3470b(1), mmu-miR-540-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCCCCAGACTGTATATGAAATTCC
siRNA sets
AATTTCATATACAGTCTGG, ATTTCATATACAGTCTGGG, TTCATATACAGTCTGGGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAHI1_1200_ORF_1
1.0455
0.208799235
0.999999554
2373
ORF sequence:
ATGAGAGAATTGTGTGGCCACCTCAATATCATTTATGATCTCGACTGGTCAAAAGACGATCGCTATCTCGTTACTTCATCCTCTGACGGCACTGCCAGAGTTTGGAAGAATGAAATCAATAGCACGAGCACGTTCAGAGTCTTACCTCACCCCTCCTTCGTCTACACGGCTAAATTCCACCCAGCCACACGGGAGCTGGTGGTTACAGGATGCTACGACTCTATGATAAGGATTTGGAAAATTGATGCAAGGGAGGATGCTGCCATATTAGTGCGCCAGTTGGATGTGCACAAGAGCTTTGTCAACTCCATCTGTTTTGACGATGAAGGTCACCACATGTACTCAGGAGACTGCATCGGGGTCATCGTTGTCTGGGACACGTACGTCAAAGTGAATGATGTGCAACACTCCGTGCGCCACTGGACGATAAATAAGGAAATTAAGGAAACTGAATTCAGGGGAGTTCCAATAAGTTACCTGGAGGTTCATCCCAATGGAAAGCGTTTGCTAATCCACACCAAAGACAGTACTCTGAGGATTATGGACCTGCGGATATTGGCAGCCAGGAAATTTGTGGGTGCAGCAAATTACCGTGAGAAGATCCATAGCACCTTGACGCCGTGCGGGACTCTGCTCTTTTCTGGGAGTGAGGATGGGATAGTATACGTTTGGAACCCAGAGACAGGAGAACAAGTGGCAATGTACTCTGACCTGCCATTCAAGTCCACAATCCGAGACATCTCTTACCACCCCCTGGAGAATATGGTTGCCTTCTGTGCCTTTGGACAGAGCGAGCCGATTCTTCTTTATATTTATGATTTCCAGGTAGCCCAGCAGGAGGCTGAAATGTTGAAACGCTATAGTGGGACACTCCCGTTGCCTGGGATACATCAGAGTGAGGATGCTTTATGCACCTGCCCTAAGCTGCCCCAGCAGGGCTCTTTTCAGATTGATGAATTTGTCAACACTGAAAATAGTTCATCAAGAAAGATTCAACTTGTGAAACAGAGACTCGAAACTGTCACAGAGGTGATACGATCCTGTGCTGCAAAAGTCAACAAAAATCTCTCAATGACTTCGCCACCACCAGGCCCTGCAAAGAAGCCCAGGGTAAAGCAGTCGTTCGTGCTGACCACTGATGAGATCATACATCAGTTTGGACTCCCCCAGACTGTATATGAAATTCCTTCTGGACGTTTTATGAGAGAATTGTGTGGCCACCTCAATATCATTTATGATCTCGACTGGTCAAAAGACGATCGCTATCTCGTTACTTCATCCTCTGACGGCACTGCCAGAGTTTGGAAGAATGAAATCAATAGCACGAGCACGTTCAGAGTCTTACCTCACCCCTCCTTCGTCTACACGGCTAAATTCCACCCAGCCACACGGGAGCTGGTGGTTACAGGATGCTACGACTCTATGATAAGGATTTGGAAAATTGATGCAAGGGAGGATGCTGCCATATTAGTGCGCCAGTTGGATGTGCACAAGAGCTTTGTCAACTCCATCTGTTTTGACGATGAAGGTCACCACATGTACTCAGGAGACTGCATCGGGGTCATCGTTGTCTGGGACACGTACGTCAAAGTGAATGATGTGCAACACTCCGTGCGCCACTGGACGATAAATAAGGAAATTAAGGAAACTGAATTCAGGGGAGTTCCAATAAGTTACCTGGAGGTTCATCCCAATGGAAAGCGTTTGCTAATCCACACCAAAGACAGTACTCTGAGGATTATGGACCTGCGGATATTGGCAGCCAGGAAATTTGTGGGTGCAGCAAATTACCGTGAGAAGATCCATAGCACCTTGACGCCGTGCGGGACTCTGCTCTTTTCTGGGAGTGAGGATGGGATAGTATACGTTTGGAACCCAGAGACAGGAGAACAAGTGGCAATGTACTCTGACCTGCCATTCAAGTCCACAATCCGAGACATCTCTTACCACCCCCTGGAGAATATGGTTGCCTTCTGTGCCTTTGGACAGAGCGAGCCGATTCTTCTTTATATTTATGATTTCCAGGTAGCCCAGCAGGAGGCTGAAATGTTGAAACGCTATAGTGGGACACTCCCGTTGCCTGGGATACATCAGAGTGAGGATGCTTTATGCACCTGCCCTAAGCTGCCCCAGCAGGGCTCTTTTCAGATTGATGAATTTGTCAACACTGAAAATAGTTCATCAAGAAAGATTCAACTTGTGAAACAGAGACTCGAAACTGTCACAGAGGTGATACGATCCTGTGCTGCAAAAGTCAACAAAAATCTCTCAATGACTTCGCCACCACCAGGCCCTGCAAAGAAGCCCAGGGTAAAGCAGTCGTTCGTGCTGACCACTGATGAGATCATACATCAGTTTGGACTCCCCCAGACT
Peptide sequence:
MRELCGHLNIIYDLDWSKDDRYLVTSSSDGTARVWKNEINSTSTFRVLPHPSFVYTAKFHPATRELVVTGCYDSMIRIWKIDAREDAAILVRQLDVHKSFVNSICFDDEGHHMYSGDCIGVIVVWDTYVKVNDVQHSVRHWTINKEIKETEFRGVPISYLEVHPNGKRLLIHTKDSTLRIMDLRILAARKFVGAANYREKIHSTLTPCGTLLFSGSEDGIVYVWNPETGEQVAMYSDLPFKSTIRDISYHPLENMVAFCAFGQSEPILLYIYDFQVAQQEAEMLKRYSGTLPLPGIHQSEDALCTCPKLPQQGSFQIDEFVNTENSSSRKIQLVKQRLETVTEVIRSCAAKVNKNLSMTSPPPGPAKKPRVKQSFVLTTDEIIHQFGLPQTVYEIPSGRFMRELCGHLNIIYDLDWSKDDRYLVTSSSDGTARVWKNEINSTSTFRVLPHPSFVYTAKFHPATRELVVTGCYDSMIRIWKIDAREDAAILVRQLDVHKSFVNSICFDDEGHHMYSGDCIGVIVVWDTYVKVNDVQHSVRHWTINKEIKETEFRGVPISYLEVHPNGKRLLIHTKDSTLRIMDLRILAARKFVGAANYREKIHSTLTPCGTLLFSGSEDGIVYVWNPETGEQVAMYSDLPFKSTIRDISYHPLENMVAFCAFGQSEPILLYIYDFQVAQQEAEMLKRYSGTLPLPGIHQSEDALCTCPKLPQQGSFQIDEFVNTENSSSRKIQLVKQRLETVTEVIRSCAAKVNKNLSMTSPPPGPAKKPRVKQSFVLTTDEIIHQFGLPQT
IRESfinder result
IRESfinder score
0.597958747
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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