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mmu_circAftph_2475
Basic information of circular RNA
PanCircBase ID:
mmu_circAftph_2475
mm39_Chr. Position ID:
chr11|20648312|20677639|-
Gene name:
Aftph
Transcript:
ENSMUST00000035350.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,5398,10368,11307,13851,27372
Genomic length:
29327
Exon/intron sizes in nt:
61,12,35,71,27,15,21,900
Flanking exon/introns:
chr11:20642588-20648312|chr11:20677639-20691305
Splice length:
2475
Other database IDs:
CIRCpedia: MMU_CIRCpedia_229779, circAtlas: mmu-Aftph_0010
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_163702
Human Ortholog IDs:
Mature spliced Sequence:
GCATAAACTAACTACTGGAAAGCTGCGGAATAATGGAGCCAGACATCATTCGAATGTACTCTTCCTCCCCCCCACCTCTAGACAACGGAGCAGAGGATGATGAGGAGGATGAGTTTGGGGAGTTTGGTGGGTTTTCGGAAGTCAGCCCTTCTGGTGTAGGGTTTGTTGATTTTGACACACCAGATTATACTCGTCCCAAGGAAGACTTTGTACCTTCAAACCACTTTATGCCAATTCATGAATATTCAGAAGATGTAGATAGCCTTACAAGCTTTAAGTCTGTTCAGAATGGTAATGATAAGGATATCACTGCTGAACTTTCTACTCCTGTGAAAAGTCAATCTGATGTTGTACTTTCTACCACCAGCAAAGAAATGATTCCATCTAAAACTTTGGATCCTTCCATCGATGGTATGGAAAGCCTGGAAGACTTAGATAAAGTAGTGGTGCAGGGACCAAGCACTGGGCAACTCAGAAGTTTCTCTCCTGGAGATTTTAGAACTGATAAGAACATTGTTCACCAAACCAAGCAGTTAGAGAGCTGCAACGGTGAAAAGCCTCCTTGTCTGGAAATTCTAACAAACGGGTTTGCAGGTTTGGAAACTGTAAATCCTCAGGGAACAGATGACCTGGACAATGTGGCAGATTCAAAGGGATCGAAGCCTCTTAACACTTGTGGCACCGAGTGCATTTTAGAGTCTGCAGCTAGTCATGCTACGGAATTTGCAGATTTTTCTACATTTTCCCAAACAGAAAGGACACAACTGGAAGAAATAGAATGTCCAGTTTTAAATGATGGTGATACACTGACCATTCAGGGAAACAGCAAAGGCCCCAGAGTCAAGGAACTAAACTGTGTGAAAGAAGTGACTTTGGATGGAAGCTTTGAGGATACGGGGAACACTGAAAGAGAACATCAGGTCTGCGTCTCAGAAATCCATGCCGTAGCTGACAGAGGGCTCAGTGTTGAAAAACAAGACCTTCAAACACTGCAACAGGATGAGTTTCTAAATTCAAGGATTCAGTCTGAGGCTTGGAGCTTGGTAGACTCAAGTGAAAATTCAGAAGCCATTACAAAGGAGCGGTGTAAAATGGAAAAAAATGACTTATTTGCCTCTAAGTGTGCTGACTTATCCATGGATTCTGTTAAAACTTCAGACGTTAATGAAATTGGTTCTTCCAAAGAAGAAAACAGAAAGCTGACTAATCCCAAAAGCCCAGACCCTGATCCCACAGGACAAAATGCTTTGGATGATTCTGCTGCAAGCATGAAAAATGGTGACAGTGGGAATGGCTTTGTGACTTGTCATGATACCAATGAGGATGATTTTGGTGACTTTGGTACAGCCAATGGCACCACTCCACCCTTTGTTACTAGTACTCAAGATTCAATGAGTGACGTCACTTTTGAAGACTCCTCAGAGCATTTTCTACATCTTAGTGAACCAGGTGATGATTTTGGAGAATTTGAGGATACAAATGCTGTTTCTTGTCAAGAGGAAATGAGATTTACTGAGTCAGACCTAAGACAGACTTCTGATGGCTTATCAGAGGAATGTCCATTGGCAGGAGAGTCTGGTGGAAAAGACAGTAAACCTGACTCAAAACTGAAAAATGGTCAAGACAGTGAATTTGGAGATTTTGATTCTGTGCCAAATACTCAAGGTAGTGCTTTTCAAGACTCGGATGATTTTGCAGACTTCAGTTCAGCAGGTCCTAGCCAAGCTGTAGATTGGAATGCTTTTGAGGATGAACAGAAAGATGGTTGTTCTTGGGCTGCCTTTGGGGATCAGCAGGAGACTGAGTCTCATCATCTAAAGGAAGTCTGGCAGTCACAGAGGACAGATGAAACTATGGGCACTCTGGGAACCCCTAAGATGCACAGTGTTTCTTCAGCAGCTTCCAAAGGAGCAGTTGCTAGTGGCCATTTGCAGGAACCAGGCACTTCAGTTCAGACAGCTTTACTCAACCGGTTGGAGAGAATTTTCGAAGCCTGTTTTCCGTCTGTGTTTGTCCCTGATGTGGAAGAGGAGGTTTCTTCCCTGAAGCACTTGCTGGAGACACACAGCTCGCCAGCAAAAACAAGAGAGGCCTTAGCTGACCGTGGTGAGTTGAGGGGTGTATGGACCGAACTGCAGGACATCCATGATGCACATGGTTTGCGGTACCAGTGGGGTGGCTCACATAGCAACAAGAAGCTTTTGTGCTCCTTGGGAATAGACACTCGAAACATTCTATTCACTGGCAATAAGAAGCAACCTGTTATAGTGCCCATGTATGCAGCAGGATTGGGAATGTTAGAGCCCACCAAGGAACCATTAAAACCACTATCTGCTGCAGAAAAAATTGCTTCTATTGGTCAGACAACCGTTATGACACCAGAAATAAACACGTGTACATCTGATCCATTCCAGGAGTCTCTCCCACCTGTCCAGTTTGACTGGAGTAGCAGTGGCCTTACTAACCCTTTAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCTCCCACCTGTCCAGTT
59.81
GCTCCGTTGTCTAGAGGTGG
59.83
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGTCTCTCCCACCTGTCCA
60.25
GCTCCGTTGTCTAGAGGTGG
59.83
152
PCR template sequence:
ACACCAGAAATAAACACGTGTACATCTGATCCATTCCAGGAGTCTCTCCCACCTGTCCAGTTTGACTGGAGTAGCAGTGGCCTTACTAACCCTTTAGATGGCATAAACTAACTACTGGAAAGCTGCGGAATAATGGAGCCAGACATCATTCGAATGTACTCTTCCTCCCCCCCACCTCTAGACAACGGAGCAGAGGATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(2), mmu-miR-670-5p(2), mmu-miR-134-5p(1), mmu-miR-15a-5p(1), mmu-miR-93-5p(1), mmu-miR-135a-5p(1), mmu-miR-211-5p(1), mmu-miR-15b-5p(1), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-370-3p(1), mmu-miR-362-5p(1), mmu-miR-224-5p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCCTTTAGATGGCATAAACTAACT
siRNA sets
TTTATGCCATCTAAAGGGT, TAGTTTATGCCATCTAAAG, TTATGCCATCTAAAGGGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAFTPH_2475_ORF_1
1.0902
0.115693751
0.999999645
2454
ORF sequence:
ATGGAGCCAGACATCATTCGAATGTACTCTTCCTCCCCCCCACCTCTAGACAACGGAGCAGAGGATGATGAGGAGGATGAGTTTGGGGAGTTTGGTGGGTTTTCGGAAGTCAGCCCTTCTGGTGTAGGGTTTGTTGATTTTGACACACCAGATTATACTCGTCCCAAGGAAGACTTTGTACCTTCAAACCACTTTATGCCAATTCATGAATATTCAGAAGATGTAGATAGCCTTACAAGCTTTAAGTCTGTTCAGAATGGTAATGATAAGGATATCACTGCTGAACTTTCTACTCCTGTGAAAAGTCAATCTGATGTTGTACTTTCTACCACCAGCAAAGAAATGATTCCATCTAAAACTTTGGATCCTTCCATCGATGGTATGGAAAGCCTGGAAGACTTAGATAAAGTAGTGGTGCAGGGACCAAGCACTGGGCAACTCAGAAGTTTCTCTCCTGGAGATTTTAGAACTGATAAGAACATTGTTCACCAAACCAAGCAGTTAGAGAGCTGCAACGGTGAAAAGCCTCCTTGTCTGGAAATTCTAACAAACGGGTTTGCAGGTTTGGAAACTGTAAATCCTCAGGGAACAGATGACCTGGACAATGTGGCAGATTCAAAGGGATCGAAGCCTCTTAACACTTGTGGCACCGAGTGCATTTTAGAGTCTGCAGCTAGTCATGCTACGGAATTTGCAGATTTTTCTACATTTTCCCAAACAGAAAGGACACAACTGGAAGAAATAGAATGTCCAGTTTTAAATGATGGTGATACACTGACCATTCAGGGAAACAGCAAAGGCCCCAGAGTCAAGGAACTAAACTGTGTGAAAGAAGTGACTTTGGATGGAAGCTTTGAGGATACGGGGAACACTGAAAGAGAACATCAGGTCTGCGTCTCAGAAATCCATGCCGTAGCTGACAGAGGGCTCAGTGTTGAAAAACAAGACCTTCAAACACTGCAACAGGATGAGTTTCTAAATTCAAGGATTCAGTCTGAGGCTTGGAGCTTGGTAGACTCAAGTGAAAATTCAGAAGCCATTACAAAGGAGCGGTGTAAAATGGAAAAAAATGACTTATTTGCCTCTAAGTGTGCTGACTTATCCATGGATTCTGTTAAAACTTCAGACGTTAATGAAATTGGTTCTTCCAAAGAAGAAAACAGAAAGCTGACTAATCCCAAAAGCCCAGACCCTGATCCCACAGGACAAAATGCTTTGGATGATTCTGCTGCAAGCATGAAAAATGGTGACAGTGGGAATGGCTTTGTGACTTGTCATGATACCAATGAGGATGATTTTGGTGACTTTGGTACAGCCAATGGCACCACTCCACCCTTTGTTACTAGTACTCAAGATTCAATGAGTGACGTCACTTTTGAAGACTCCTCAGAGCATTTTCTACATCTTAGTGAACCAGGTGATGATTTTGGAGAATTTGAGGATACAAATGCTGTTTCTTGTCAAGAGGAAATGAGATTTACTGAGTCAGACCTAAGACAGACTTCTGATGGCTTATCAGAGGAATGTCCATTGGCAGGAGAGTCTGGTGGAAAAGACAGTAAACCTGACTCAAAACTGAAAAATGGTCAAGACAGTGAATTTGGAGATTTTGATTCTGTGCCAAATACTCAAGGTAGTGCTTTTCAAGACTCGGATGATTTTGCAGACTTCAGTTCAGCAGGTCCTAGCCAAGCTGTAGATTGGAATGCTTTTGAGGATGAACAGAAAGATGGTTGTTCTTGGGCTGCCTTTGGGGATCAGCAGGAGACTGAGTCTCATCATCTAAAGGAAGTCTGGCAGTCACAGAGGACAGATGAAACTATGGGCACTCTGGGAACCCCTAAGATGCACAGTGTTTCTTCAGCAGCTTCCAAAGGAGCAGTTGCTAGTGGCCATTTGCAGGAACCAGGCACTTCAGTTCAGACAGCTTTACTCAACCGGTTGGAGAGAATTTTCGAAGCCTGTTTTCCGTCTGTGTTTGTCCCTGATGTGGAAGAGGAGGTTTCTTCCCTGAAGCACTTGCTGGAGACACACAGCTCGCCAGCAAAAACAAGAGAGGCCTTAGCTGACCGTGGTGAGTTGAGGGGTGTATGGACCGAACTGCAGGACATCCATGATGCACATGGTTTGCGGTACCAGTGGGGTGGCTCACATAGCAACAAGAAGCTTTTGTGCTCCTTGGGAATAGACACTCGAAACATTCTATTCACTGGCAATAAGAAGCAACCTGTTATAGTGCCCATGTATGCAGCAGGATTGGGAATGTTAGAGCCCACCAAGGAACCATTAAAACCACTATCTGCTGCAGAAAAAATTGCTTCTATTGGTCAGACAACCGTTATGACACCAGAAATAAACACGTGTACATCTGATCCATTCCAGGAGTCTCTCCCACCTGTCCAGTTTGACTGGAGTAGCAGTGGCCTTACTAACCCTTTAGATGGCATAAACTAA
Peptide sequence:
MEPDIIRMYSSSPPPLDNGAEDDEEDEFGEFGGFSEVSPSGVGFVDFDTPDYTRPKEDFVPSNHFMPIHEYSEDVDSLTSFKSVQNGNDKDITAELSTPVKSQSDVVLSTTSKEMIPSKTLDPSIDGMESLEDLDKVVVQGPSTGQLRSFSPGDFRTDKNIVHQTKQLESCNGEKPPCLEILTNGFAGLETVNPQGTDDLDNVADSKGSKPLNTCGTECILESAASHATEFADFSTFSQTERTQLEEIECPVLNDGDTLTIQGNSKGPRVKELNCVKEVTLDGSFEDTGNTEREHQVCVSEIHAVADRGLSVEKQDLQTLQQDEFLNSRIQSEAWSLVDSSENSEAITKERCKMEKNDLFASKCADLSMDSVKTSDVNEIGSSKEENRKLTNPKSPDPDPTGQNALDDSAASMKNGDSGNGFVTCHDTNEDDFGDFGTANGTTPPFVTSTQDSMSDVTFEDSSEHFLHLSEPGDDFGEFEDTNAVSCQEEMRFTESDLRQTSDGLSEECPLAGESGGKDSKPDSKLKNGQDSEFGDFDSVPNTQGSAFQDSDDFADFSSAGPSQAVDWNAFEDEQKDGCSWAAFGDQQETESHHLKEVWQSQRTDETMGTLGTPKMHSVSSAASKGAVASGHLQEPGTSVQTALLNRLERIFEACFPSVFVPDVEEEVSSLKHLLETHSSPAKTREALADRGELRGVWTELQDIHDAHGLRYQWGGSHSNKKLLCSLGIDTRNILFTGNKKQPVIVPMYAAGLGMLEPTKEPLKPLSAAEKIASIGQTTVMTPEINTCTSDPFQESLPPVQFDWSSSGLTNPLDGIN
IRESfinder result
IRESfinder score
0.606797842
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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