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mmu_circSlc39a10_2354
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc39a10_2354
mm39_Chr. Position ID:
chr1|46851145|46875311|-
Gene name:
Slc39a10
Transcript:
ENSMUST00000027131.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
9,8,7,6,5,4,3,2
Exon/intron offsets:
0,6077,7079,8537,14107,15357,20570,23141
Genomic length:
24166
Exon/intron sizes in nt:
1,91,81,36,91,21,18,91,00,00,00,000
Flanking exon/introns:
chr1:46849271-46851145|chr1:46875311-46892630
Splice length:
2354
Other database IDs:
CIRCpedia: MMU_CIRCpedia_20971, circAtlas: mmu-Slc39a10_0004
circBase: hsa_circ_0057553, circAtlas: hsa-SLC39A10_0004, CIRCpedia: HSA_CIRCpedia_38957
Human Ortholog IDs:
Mature spliced Sequence:
GAAAAGTAGAAATGAAGGTGCATATACACACAAAGTTTTGCCTCATCTGTTTACTGACATTTATTTTCCATCATTGCAACCACTGCCATGAAGACCATGACCATGGCCCTGAGGAGCTTCACAGACATCATCGTGGGATGACAGAGTCAGAGTCAAGCAAATTTTCAGTGCAGGATGCTGAAAATGAAAAAAAGTACTATATTGAAAAACTTTTTGACCGTTATGGTGAAAATGGAAGATTATCATTTTTTGGTCTGGAGAAACTTTTAACAAACTTGGGCCTTGGAGAGATCAAAGTCGTTGAGATTAATCACGAGGACCTTGGCCATGATCATGTTTCTCACTTAGACATTCTGGCAGTGCAAGAGGGAAAGCATTTCCATTCGCATACCCACCAGCATTTTCACAATCATTTAAATGCAGAAAATCATACTACAACCAGTGTGACATCAAAAAGAAACCACAAATGTGATCCAGAGAAAGAGGCAGCTGAACTGCCCATCAAAGCTGATGATAAACACCTGCATGACCGCAATCACCGCTTCCATCATCGCCATCGTTTGCATCATCACCTGGATCACAACACTACTCGTCACGTTCATAATGACTCCGTTGCTCACAGTGAGCATGGGGAGCCCGGTCACAGCCCTTCACCAGAGACCAATAAAACACAAGAGCAGTCTGAAGTGAAGTCAGTGAAGGTCAGGAGGAAAGAAAAAGGGAAGAGGAAGAAAGAAAACTCGGAGGTTAATACACCAGGTTTCCTCCCCAACCATGATCACAGTGAACAATATGAGCATAACCGGGTTCACAAACTTGACCGTGTACATAGCCCTGGCCATCCTCATGCGCATCTTCCTGAGCACAGTGGTCATGAGCTTGGCCATGGACACCAAGAACTTGATCCTGATAATGAAGGTGAACTTCGACATACTAGAAAGCGAGAAGCACCACATGTTAGAAAAAGTGCAATTTATTCCACCCCTAGCCACAAAGACCAGAGTGAAGACGACCGCCAGCATGAATGTTTGAACGTCACTCAGTTGTTAAAACACTTTGGTCTTGGTCCGAACTCTCCCATCTCACCGGATCTATTCACGTACCTTTGCCCTGCATTGCTGTATCAGATCGACAGCAGACTTTGTATTGAACATTTTGACAAACTTTTAGTTGAAGATTTAAATAAGGATAAAACTCTGGTTCCTGAAGATAAGACAAATATAGGGGCATCGGCGTGGATCTGTGGCATCATATCTATCACCGTCATTAGTCTGCTTTCCTTGCTGGGTGTGATTTTGGTTCCCATCATCAACCAAGGATGCTTCAAATTCCTTCTCACGTTCCTTGTTGCACTAGCAGTAGGAACAATGAGTGGAGACGCCCTTCTGCATCTACTGCCCCATTCTCAGGGTGGACATGACCACAGTCATCAGCATACGCACGGACATGGTCATTCACATGGGCATGAATCTAAGGAGTTTTTGGAAGAATATGATGCTGTGTTGAAAGGACTTGTGGCGCTAGGAGGCATTTACTTACTGTTCATCATAGAACACTGCATTCGAATGTTTAAGCACTACAAGCAACAAAGAGGAAAACAGAAATGGTTTATGAAGCAGAGCACAGAAGAATCCACTATTGGAAGAAAGCTTTCAGATCATAAGTTAAACAGCACACCGGATGCTGACTGGCTCCAACTCAAGCCCCTTGCTGGAACGGATGACTCGGTAGTCTCTGAAGACCGGCTTAATGAGACTGAACTGACGGATTTAGAAGCCCAACAAGAATCCCCTCCTAAAAATTACCTGGGTGTGGAGGAAGAGAAAATCATGGACCATTCTCACAGTGATGGACTGCACACCATTCATGAGCACGAGGTCCACGTGACCTCACATAACCACCATGATGAGGATAAAGCAGTGCTGAGGAAGCACAGCCACCAGTGGCACCACAGACACGCCCATCATTCTCACGGGCCCTGCCACTCCGGCTCAGACCTGAAGGAAACAGGAATAGCCAATATAGCCTGGATGGTGATCATGGGTGACGGCATCCACAACTTCAGTGACGGCCTCGCCATTGGGGCAGCTTTCAGCGCGGGGCTGACTGGAGGCATCAGCACATCCATAGCCGTCTTCTGTCATGAACTGCCACATGAATTAGGTGATTTTGCAGTTCTTCTAAAAGCAGGCATGACCGTAAAGCAAGCAATTGTGTACAATCTGCTCTCTGCCATGATGGCTTACATAGGAATGCTCATAGGCACGGCAGTCGGTCAGTATGCCAACAACATCACACTCTGGATCTTCGCAATCACTGCCGGCATGTTCCTCTATGTGGCCTTGGTGGATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAATCACTGCCGGCATGTTC
60.18
TGGTCTTCATGGCAGTGGTT
59.52
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAATCACTGCCGGCATGTTC
60.18
ATGGTCTTCATGGCAGTGGT
59.3
142
PCR template sequence:
GCTCATAGGCACGGCAGTCGGTCAGTATGCCAACAACATCACACTCTGGATCTTCGCAATCACTGCCGGCATGTTCCTCTATGTGGCCTTGGTGGATATGGAAAAGTAGAAATGAAGGTGCATATACACACAAAGTTTTGCCTCATCTGTTTACTGACATTTATTTTCCATCATTGCAACCACTGCCATGAAGACCATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
24
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-181a-5p(1), mmu-miR-34c-5p(1), mmu-miR-223-3p(1), mmu-miR-92a-3p(1), mmu-miR-205-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-181b-5p(1), mmu-miR-363-3p(1), mmu-miR-127-5p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-362-5p(1), mmu-miR-301a-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-452-3p(1), mmu-miR-574-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTGGTGGATATGGAAAAGTAGAAAT
siRNA sets
TTTCTACTTTTCCATATCC, ATTTCTACTTTTCCATATC, TTCTACTTTTCCATATCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC39A10_2354_ORF_1
1.222
0.13503455
0.999999467
2352
ORF sequence:
ATGAAGGTGCATATACACACAAAGTTTTGCCTCATCTGTTTACTGACATTTATTTTCCATCATTGCAACCACTGCCATGAAGACCATGACCATGGCCCTGAGGAGCTTCACAGACATCATCGTGGGATGACAGAGTCAGAGTCAAGCAAATTTTCAGTGCAGGATGCTGAAAATGAAAAAAAGTACTATATTGAAAAACTTTTTGACCGTTATGGTGAAAATGGAAGATTATCATTTTTTGGTCTGGAGAAACTTTTAACAAACTTGGGCCTTGGAGAGATCAAAGTCGTTGAGATTAATCACGAGGACCTTGGCCATGATCATGTTTCTCACTTAGACATTCTGGCAGTGCAAGAGGGAAAGCATTTCCATTCGCATACCCACCAGCATTTTCACAATCATTTAAATGCAGAAAATCATACTACAACCAGTGTGACATCAAAAAGAAACCACAAATGTGATCCAGAGAAAGAGGCAGCTGAACTGCCCATCAAAGCTGATGATAAACACCTGCATGACCGCAATCACCGCTTCCATCATCGCCATCGTTTGCATCATCACCTGGATCACAACACTACTCGTCACGTTCATAATGACTCCGTTGCTCACAGTGAGCATGGGGAGCCCGGTCACAGCCCTTCACCAGAGACCAATAAAACACAAGAGCAGTCTGAAGTGAAGTCAGTGAAGGTCAGGAGGAAAGAAAAAGGGAAGAGGAAGAAAGAAAACTCGGAGGTTAATACACCAGGTTTCCTCCCCAACCATGATCACAGTGAACAATATGAGCATAACCGGGTTCACAAACTTGACCGTGTACATAGCCCTGGCCATCCTCATGCGCATCTTCCTGAGCACAGTGGTCATGAGCTTGGCCATGGACACCAAGAACTTGATCCTGATAATGAAGGTGAACTTCGACATACTAGAAAGCGAGAAGCACCACATGTTAGAAAAAGTGCAATTTATTCCACCCCTAGCCACAAAGACCAGAGTGAAGACGACCGCCAGCATGAATGTTTGAACGTCACTCAGTTGTTAAAACACTTTGGTCTTGGTCCGAACTCTCCCATCTCACCGGATCTATTCACGTACCTTTGCCCTGCATTGCTGTATCAGATCGACAGCAGACTTTGTATTGAACATTTTGACAAACTTTTAGTTGAAGATTTAAATAAGGATAAAACTCTGGTTCCTGAAGATAAGACAAATATAGGGGCATCGGCGTGGATCTGTGGCATCATATCTATCACCGTCATTAGTCTGCTTTCCTTGCTGGGTGTGATTTTGGTTCCCATCATCAACCAAGGATGCTTCAAATTCCTTCTCACGTTCCTTGTTGCACTAGCAGTAGGAACAATGAGTGGAGACGCCCTTCTGCATCTACTGCCCCATTCTCAGGGTGGACATGACCACAGTCATCAGCATACGCACGGACATGGTCATTCACATGGGCATGAATCTAAGGAGTTTTTGGAAGAATATGATGCTGTGTTGAAAGGACTTGTGGCGCTAGGAGGCATTTACTTACTGTTCATCATAGAACACTGCATTCGAATGTTTAAGCACTACAAGCAACAAAGAGGAAAACAGAAATGGTTTATGAAGCAGAGCACAGAAGAATCCACTATTGGAAGAAAGCTTTCAGATCATAAGTTAAACAGCACACCGGATGCTGACTGGCTCCAACTCAAGCCCCTTGCTGGAACGGATGACTCGGTAGTCTCTGAAGACCGGCTTAATGAGACTGAACTGACGGATTTAGAAGCCCAACAAGAATCCCCTCCTAAAAATTACCTGGGTGTGGAGGAAGAGAAAATCATGGACCATTCTCACAGTGATGGACTGCACACCATTCATGAGCACGAGGTCCACGTGACCTCACATAACCACCATGATGAGGATAAAGCAGTGCTGAGGAAGCACAGCCACCAGTGGCACCACAGACACGCCCATCATTCTCACGGGCCCTGCCACTCCGGCTCAGACCTGAAGGAAACAGGAATAGCCAATATAGCCTGGATGGTGATCATGGGTGACGGCATCCACAACTTCAGTGACGGCCTCGCCATTGGGGCAGCTTTCAGCGCGGGGCTGACTGGAGGCATCAGCACATCCATAGCCGTCTTCTGTCATGAACTGCCACATGAATTAGGTGATTTTGCAGTTCTTCTAAAAGCAGGCATGACCGTAAAGCAAGCAATTGTGTACAATCTGCTCTCTGCCATGATGGCTTACATAGGAATGCTCATAGGCACGGCAGTCGGTCAGTATGCCAACAACATCACACTCTGGATCTTCGCAATCACTGCCGGCATGTTCCTCTATGTGGCCTTGGTGGATATGGAAAAGTAG
Peptide sequence:
MKVHIHTKFCLICLLTFIFHHCNHCHEDHDHGPEELHRHHRGMTESESSKFSVQDAENEKKYYIEKLFDRYGENGRLSFFGLEKLLTNLGLGEIKVVEINHEDLGHDHVSHLDILAVQEGKHFHSHTHQHFHNHLNAENHTTTSVTSKRNHKCDPEKEAAELPIKADDKHLHDRNHRFHHRHRLHHHLDHNTTRHVHNDSVAHSEHGEPGHSPSPETNKTQEQSEVKSVKVRRKEKGKRKKENSEVNTPGFLPNHDHSEQYEHNRVHKLDRVHSPGHPHAHLPEHSGHELGHGHQELDPDNEGELRHTRKREAPHVRKSAIYSTPSHKDQSEDDRQHECLNVTQLLKHFGLGPNSPISPDLFTYLCPALLYQIDSRLCIEHFDKLLVEDLNKDKTLVPEDKTNIGASAWICGIISITVISLLSLLGVILVPIINQGCFKFLLTFLVALAVGTMSGDALLHLLPHSQGGHDHSHQHTHGHGHSHGHESKEFLEEYDAVLKGLVALGGIYLLFIIEHCIRMFKHYKQQRGKQKWFMKQSTEESTIGRKLSDHKLNSTPDADWLQLKPLAGTDDSVVSEDRLNETELTDLEAQQESPPKNYLGVEEEKIMDHSHSDGLHTIHEHEVHVTSHNHHDEDKAVLRKHSHQWHHRHAHHSHGPCHSGSDLKETGIANIAWMVIMGDGIHNFSDGLAIGAAFSAGLTGGISTSIAVFCHELPHELGDFAVLLKAGMTVKQAIVYNLLSAMMAYIGMLIGTAVGQYANNITLWIFAITAGMFLYVALVDMEK
IRESfinder result
IRESfinder score
0.581712542
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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