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mmu_circAtp9b_1329
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp9b_1329
mm39_Chr. Position ID:
chr18|80820012|80952920|-
Gene name:
Atp9b
Transcript:
ENSMUST00000091790.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,2065,18492,31814,59557,67729,70374,81746,92944,100517,115017,132794
Genomic length:
132908
Exon/intron sizes in nt:
2,49,11,31,43,16,17,77,00,00,00,00,00,00,000
Flanking exon/introns:
chr18:80809147-80820012|chr18:80952920-80956011
Splice length:
1329
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_132317
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTGTATGAACAATTCAAGTTTTTCTTGAATCTCTATTTTCTGGTAGTGTCCTGCTCACAGTTTGTACCAGCATTGAAAATTGGCTACCTCTACACCTACTGGGCTCCTCTGGGATTTGTTTTGGCCGTTACGATTGCACGTGAAGCGATTGATGAATTTCGACGTTTTCAGCGAGACAAGGAAATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGACCTTTTTTCTATCAGTGCCTATGTTTATGCTCAGAAGCCACAACTGGATATTCATAGCTTTGAAGGAACATTTACCAGGGAAGACAGTGATCCTCCCATTCATGAGAGTCTCAGCATAGAGAACACTCTGTGGGCAAGCACTATTGTTGCATCAGGTACTGTAATAGGTGTTGTCATTTATACTGGAAAAGAGACTCGAAGTGTAATGAACACATCCAATCCAAAAAATAAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCACTGGGGAGACTGAG
59.82
TGTGAGCAGGACACTACCAG
59.03
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATCACTGGGGAGACTGAG
59.82
CTGTGAGCAGGACACTACCA
59.03
149
PCR template sequence:
TGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAGGTTTTGTATGAACAATTCAAGTTTTTCTTGAATCTCTATTTTCTGGTAGTGTCCTGCTCACAGTTTGTACCAGCATTGAAAATTGGCTACCTCTACACCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-101a-3p(1), mmu-let-7c-5p(1), mmu-miR-101b-3p(1), mmu-let-7d-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-98-5p(1), mmu-miR-1198-5p(1), mmu-miR-452-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCCCCGATGAGGTTTTGTATGAAC
siRNA sets
TTCATACAAAACCTCATCG, TCATACAAAACCTCATCGG, GTTCATACAAAACCTCATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP9B_1329_ORF_1
0.9779
0.13183134
0.999999659
2472
ORF sequence:
ATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGACCTTTTTTCTATCAGTGCCTATGTTTATGCTCAGAAGCCACAACTGGATATTCATAGCTTTGAAGGAACATTTACCAGGGAAGACAGTGATCCTCCCATTCATGAGAGTCTCAGCATAGAGAACACTCTGTGGGCAAGCACTATTGTTGCATCAGGTACTGTAATAGGTGTTGTCATTTATACTGGAAAAGAGACTCGAAGTGTAATGAACACATCCAATCCAAAAAATAAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAGGTTTTGTATGAACAATTCAAGTTTTTCTTGAATCTCTATTTTCTGGTAGTGTCCTGCTCACAGTTTGTACCAGCATTGAAAATTGGCTACCTCTACACCTACTGGGCTCCTCTGGGATTTGTTTTGGCCGTTACGATTGCACGTGAAGCGATTGATGAATTTCGACGTTTTCAGCGAGACAAGGAAATGAATTCACAGTTATATAGCAAGCTTACAGTAAGAGGTAAAGTTCAAGTTAAGAGCTCAGACATACAAGTTGGAGACCTCATCATAGTGGAAAAGAACCAAAGAATTCCATCAGATATGGTATTTCTTAGAACTTCAGAGAAAGCAGGTTCATGTTTTATCCGCACGGACCAGCTAGATGGTGAGACTGACTGGAAGCTGAAGGTGGCGGTGAGCTGCACACAACGGCTGCCAGCCCTCGGGGACCTTTTTTCTATCAGTGCCTATGTTTATGCTCAGAAGCCACAACTGGATATTCATAGCTTTGAAGGAACATTTACCAGGGAAGACAGTGATCCTCCCATTCATGAGAGTCTCAGCATAGAGAACACTCTGTGGGCAAGCACTATTGTTGCATCAGGTACTGTAATAGGTGTTGTCATTTATACTGGAAAAGAGACTCGAAGTGTAATGAACACATCCAATCCAAAAAATAAGGTTGGTTTATTGGACCTCGAACTCAATCAGCTGACAAAGGCGCTATTTCTGGCTTTAGTTGTTCTTTCTGTTGTTATGGTAACCTTACAGGGATTTGCAGGCCCATGGTACCGTAATCTTTTTCGGTTCCTCCTTCTCTTTTCCTACATCATTCCCATAAGTCTGCGAGTAAACTTGGATATGGGCAAAGCAGCATATGGATGGATGATTATGAAAGATGAGAATATTCCTGGTACAGTTGTTCGGACCAGCACAATACCAGAAGAACTTGGACGCCTGGTGTACTTACTGACAGACAAAACAGGGACGCTCACTCAGAATGAAATGGTATTTAAGCGGCTCCATCTGGGCACTGTCTCCTACGGAACGGACACTATGGACGAAATCCAAAGTCACGTCCTGAATTCCTACCTGCAGGTACACTCACAGCCAAGTGGGCACAACCCAAGCTCTGCTCCACTGAGAAGAAGCCAGTCCTCAACGCCTAAAGTCAAGAAGAGCGTCAGCAGTAGAATCCATGAAGCAGTGAAAGCCATTGCCCTTTGTCATAATGTCACTCCTGTGTATGAGGCTCGGGCTGGCATCACTGGGGAGACTGAGTTTGCTGAAGCAGACCAAGACTTTAGTGATGAGAACCGCACCTACCAGGCCTCCAGCCCCGATGAG
Peptide sequence:
MNSQLYSKLTVRGKVQVKSSDIQVGDLIIVEKNQRIPSDMVFLRTSEKAGSCFIRTDQLDGETDWKLKVAVSCTQRLPALGDLFSISAYVYAQKPQLDIHSFEGTFTREDSDPPIHESLSIENTLWASTIVASGTVIGVVIYTGKETRSVMNTSNPKNKVGLLDLELNQLTKALFLALVVLSVVMVTLQGFAGPWYRNLFRFLLLFSYIIPISLRVNLDMGKAAYGWMIMKDENIPGTVVRTSTIPEELGRLVYLLTDKTGTLTQNEMVFKRLHLGTVSYGTDTMDEIQSHVLNSYLQVHSQPSGHNPSSAPLRRSQSSTPKVKKSVSSRIHEAVKAIALCHNVTPVYEARAGITGETEFAEADQDFSDENRTYQASSPDEVLYEQFKFFLNLYFLVVSCSQFVPALKIGYLYTYWAPLGFVLAVTIAREAIDEFRRFQRDKEMNSQLYSKLTVRGKVQVKSSDIQVGDLIIVEKNQRIPSDMVFLRTSEKAGSCFIRTDQLDGETDWKLKVAVSCTQRLPALGDLFSISAYVYAQKPQLDIHSFEGTFTREDSDPPIHESLSIENTLWASTIVASGTVIGVVIYTGKETRSVMNTSNPKNKVGLLDLELNQLTKALFLALVVLSVVMVTLQGFAGPWYRNLFRFLLLFSYIIPISLRVNLDMGKAAYGWMIMKDENIPGTVVRTSTIPEELGRLVYLLTDKTGTLTQNEMVFKRLHLGTVSYGTDTMDEIQSHVLNSYLQVHSQPSGHNPSSAPLRRSQSSTPKVKKSVSSRIHEAVKAIALCHNVTPVYEARAGITGETEFAEADQDFSDENRTYQASSPDE
IRESfinder result
IRESfinder score
0.646572287
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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