top of page
mmu_circSptbn1_1969
Basic information of circular RNA
PanCircBase ID:
mmu_circSptbn1_1969
mm39_Chr. Position ID:
chr11|30085939|30089462|-
Gene name:
Sptbn1
Transcript:
ENSMUST00000006629.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
17,16,15,14
Exon/intron offsets:
0,934,2424,2652
Genomic length:
3523
Exon/intron sizes in nt:
203,757,138,871
Flanking exon/introns:
chr11:30079660-30085939|chr11:30089462-30090470
Splice length:
1969
Other database IDs:
circAtlas: mmu-Sptbn1_0081
Human Ortholog IDs:
Mature spliced Sequence:
GCTACAAGCCATGTGACCCCCAGGTAATTCGAGACCGTGTTGCCCACATGGAGTTCTGCTATCAAGAGCTTTGTCAGCTGGCTGCCGAGCGTAGGGCTCGCCTGGAAGAGTCCCGTCGCCTCTGGAAGTTCTTCTGGGAGATGGCAGAAGAGGAAGGCTGGATACGAGAGAAGGAGAAGATCCTGTCCTCTGATGATTACGGGAAAGACTTGACCAGTGTCATGCGCCTGCTGAGCAAGCACCGGGCATTTGAGGATGAGATGAGTGGCCGTAGTGGCCATTTTGAGCAGGCCATTAAAGAAGGTGAAGACATGATTGCAGAGGAACACTTTGGATCGGAAAAGATCCGTGAGAGAATCATTTATATCCGGGAGCAGTGGGCCAACCTGGAACAGCTCTCAGCCATTAGGAAGAAGCGCCTAGAGGAAGCCTCATTACTGCACCAGTTCCAGGCTGATGCTGATGATATTGATGCTTGGATGTTAGATATACTCAAGATTGTCTCCAGCAATGATGTGGGCCATGATGAGTACTCCACGCAGTCTCTGGTCAAGAAGCATAAAGATGTAGCAGAAGAGATCACCAACTACAGGCCCACTATTGACACACTGCATGAGCAAGCCAGTGCCCTTCCACAAGCACATGCAGAGTCTCCAGATGTGAAGGGCCGGCTGGCAGGAATTGAGGAGCGCTGCAAGGAGATGGCAGAGTTAACACGGCTAAGGAAGCAGGCTCTGCAGGACACCCTGGCCCTGTACAAGATGTTCAGTGAGGCTGATGCCTGTGAGCTCTGGATTGACGAGAAGGAGCAGTGGCTCAACAACATGCAGATCCCAGAGAAGCTGGAGGACCTGGAAGTCATCCAGCACAGATTTGAGAGCCTAGAACCAGAAATGAACAACCAGGCTTCCCGGGTTGCTGTGGTGAACCAGATTGCACGGCAGCTGATGCACAATGGCCACCCCAGTGAAAAGGAAATCAGAGCTCAGCAAGACAAACTCAACACGAGGTGGAGTCAGTTCAGAGAACTGGTGGACAGGAAAAAGGATGCTCTTCTGTCTGCCCTGAGCATCCAGAACTACCACCTCGAGTGCAATGAAACCAAATCCTGGATCCGGGAGAAGACCAAGGTCATCGAGTCTACCCAAGACCTTGGCAATGACCTGGCAGGTGTCATGGCCCTGCAGCGCAAGCTGACTGGCATGGAACGAGACTTGGTAGCCATTGAGGCGAAGCTGAGTGACCTGCAGAAAGAAGCTGAGAAGCTGGAGTCCGAGCACCCTGACCAGGCTCAAGCTATCCTGTCTCGGCTGGCCGAGATCAGTGATGTGTGGGAGGAAATGAAGACAACCCTGAAGAACCGAGAGGCCTCCCTGGGAGAGGCCAGCAAGCTGCAGCAGTTTCTGCGGGACTTGGACGACTTCCAGTCTTGGCTCTCCAGGACCCAGACTGCTATCGCCTCAGAGGACATGCCCAATACCCTCACTGAGGCAGAGAAGCTTCTCACACAGCACGAGAATATCAAAAATGAGATCGACAATTATGAGGAAGACTACCAGAAGATGCGGGACATGGGCGAGATGGTCACCCAGGGGCAGACTGATGCCCAGTATATGTTTCTGCGGCAGCGGCTGCAGGCCTTAGACACTGGCTGGAATGAGCTCCACAAAATGTGGGAGAACAGGCAAAACCTCCTCTCCCAGTCCCATGCCTACCAGCAGTTCCTTAGGGACACCAAACAAGCTGAAGCTTTTCTTAATAACCAGGAGTATGTTTTGGCTCATACTGAAATGCCCACCACCCTGGAAGGAGCTGAAGCAGCCATTAAAAAGCAGGAGGACTTCATGACCACCATGGATGCCAACGAGGAGAAGATCAATGCTGTTGTGGAGACTGGCCGAAGACTGGTGAGCGATGGGAACATCAACTCCGACCGCATCCAGGAGAAGGTGGACTCTATTGACGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCTGTTGTGGAGACTGGC
60.61
TAGCAGAACTCCATGTGGGC
59.75
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCTGTTGTGGAGACTGGC
60.61
AGAACTCCATGTGGGCAACA
59.52
148
PCR template sequence:
AGAAGATCAATGCTGTTGTGGAGACTGGCCGAAGACTGGTGAGCGATGGGAACATCAACTCCGACCGCATCCAGGAGAAGGTGGACTCTATTGACGACAGGCTACAAGCCATGTGACCCCCAGGTAATTCGAGACCGTGTTGCCCACATGGAGTTCTGCTATCAAGAGCTTTGTCAGCTGGCTGCCGAGCGTAGGGCTCG
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-207(4), mmu-miR-221-3p(1), mmu-miR-92a-3p(1), mmu-miR-298-5p(1), mmu-miR-222-3p(1), mmu-miR-326-3p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-214-3p(1), mmu-miR-494-3p(1), mmu-miR-183-5p(1), mmu-miR-425-5p(1), mmu-miR-5101(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTATTGACGACAGGCTACAAGCCATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPTBN1_1969_ORF_1
1.2862
0.502134238
0.999998879
2022
ORF sequence:
ATGGGAACATCAACTCCGACCGCATCCAGGAGAAGGTGGACTCTATTGACGACAGGCTACAAGCCATGTGACCCCCAGGTAATTCGAGACCGTGTTGCCCACATGGAGTTCTGCTATCAAGAGCTTTGTCAGCTGGCTGCCGAGCGTAGGGCTCGCCTGGAAGAGTCCCGTCGCCTCTGGAAGTTCTTCTGGGAGATGGCAGAAGAGGAAGGCTGGATACGAGAGAAGGAGAAGATCCTGTCCTCTGATGATTACGGGAAAGACTTGACCAGTGTCATGCGCCTGCTGAGCAAGCACCGGGCATTTGAGGATGAGATGAGTGGCCGTAGTGGCCATTTTGAGCAGGCCATTAAAGAAGGTGAAGACATGATTGCAGAGGAACACTTTGGATCGGAAAAGATCCGTGAGAGAATCATTTATATCCGGGAGCAGTGGGCCAACCTGGAACAGCTCTCAGCCATTAGGAAGAAGCGCCTAGAGGAAGCCTCATTACTGCACCAGTTCCAGGCTGATGCTGATGATATTGATGCTTGGATGTTAGATATACTCAAGATTGTCTCCAGCAATGATGTGGGCCATGATGAGTACTCCACGCAGTCTCTGGTCAAGAAGCATAAAGATGTAGCAGAAGAGATCACCAACTACAGGCCCACTATTGACACACTGCATGAGCAAGCCAGTGCCCTTCCACAAGCACATGCAGAGTCTCCAGATGTGAAGGGCCGGCTGGCAGGAATTGAGGAGCGCTGCAAGGAGATGGCAGAGTTAACACGGCTAAGGAAGCAGGCTCTGCAGGACACCCTGGCCCTGTACAAGATGTTCAGTGAGGCTGATGCCTGTGAGCTCTGGATTGACGAGAAGGAGCAGTGGCTCAACAACATGCAGATCCCAGAGAAGCTGGAGGACCTGGAAGTCATCCAGCACAGATTTGAGAGCCTAGAACCAGAAATGAACAACCAGGCTTCCCGGGTTGCTGTGGTGAACCAGATTGCACGGCAGCTGATGCACAATGGCCACCCCAGTGAAAAGGAAATCAGAGCTCAGCAAGACAAACTCAACACGAGGTGGAGTCAGTTCAGAGAACTGGTGGACAGGAAAAAGGATGCTCTTCTGTCTGCCCTGAGCATCCAGAACTACCACCTCGAGTGCAATGAAACCAAATCCTGGATCCGGGAGAAGACCAAGGTCATCGAGTCTACCCAAGACCTTGGCAATGACCTGGCAGGTGTCATGGCCCTGCAGCGCAAGCTGACTGGCATGGAACGAGACTTGGTAGCCATTGAGGCGAAGCTGAGTGACCTGCAGAAAGAAGCTGAGAAGCTGGAGTCCGAGCACCCTGACCAGGCTCAAGCTATCCTGTCTCGGCTGGCCGAGATCAGTGATGTGTGGGAGGAAATGAAGACAACCCTGAAGAACCGAGAGGCCTCCCTGGGAGAGGCCAGCAAGCTGCAGCAGTTTCTGCGGGACTTGGACGACTTCCAGTCTTGGCTCTCCAGGACCCAGACTGCTATCGCCTCAGAGGACATGCCCAATACCCTCACTGAGGCAGAGAAGCTTCTCACACAGCACGAGAATATCAAAAATGAGATCGACAATTATGAGGAAGACTACCAGAAGATGCGGGACATGGGCGAGATGGTCACCCAGGGGCAGACTGATGCCCAGTATATGTTTCTGCGGCAGCGGCTGCAGGCCTTAGACACTGGCTGGAATGAGCTCCACAAAATGTGGGAGAACAGGCAAAACCTCCTCTCCCAGTCCCATGCCTACCAGCAGTTCCTTAGGGACACCAAACAAGCTGAAGCTTTTCTTAATAACCAGGAGTATGTTTTGGCTCATACTGAAATGCCCACCACCCTGGAAGGAGCTGAAGCAGCCATTAAAAAGCAGGAGGACTTCATGACCACCATGGATGCCAACGAGGAGAAGATCAATGCTGTTGTGGAGACTGGCCGAAGACTGGTGAGCGATGGGAACATCAACTCCGACCGCATCCAGGAGAAGGTGGACTCTATTGACGAC
Peptide sequence:
MGTSTPTASRRRWTLLTTGYKPCDPQVIRDRVAHMEFCYQELCQLAAERRARLEESRRLWKFFWEMAEEEGWIREKEKILSSDDYGKDLTSVMRLLSKHRAFEDEMSGRSGHFEQAIKEGEDMIAEEHFGSEKIRERIIYIREQWANLEQLSAIRKKRLEEASLLHQFQADADDIDAWMLDILKIVSSNDVGHDEYSTQSLVKKHKDVAEEITNYRPTIDTLHEQASALPQAHAESPDVKGRLAGIEERCKEMAELTRLRKQALQDTLALYKMFSEADACELWIDEKEQWLNNMQIPEKLEDLEVIQHRFESLEPEMNNQASRVAVVNQIARQLMHNGHPSEKEIRAQQDKLNTRWSQFRELVDRKKDALLSALSIQNYHLECNETKSWIREKTKVIESTQDLGNDLAGVMALQRKLTGMERDLVAIEAKLSDLQKEAEKLESEHPDQAQAILSRLAEISDVWEEMKTTLKNREASLGEASKLQQFLRDLDDFQSWLSRTQTAIASEDMPNTLTEAEKLLTQHENIKNEIDNYEEDYQKMRDMGEMVTQGQTDAQYMFLRQRLQALDTGWNELHKMWENRQNLLSQSHAYQQFLRDTKQAEAFLNNQEYVLAHTEMPTTLEGAEAAIKKQEDFMTTMDANEEKINAVVETGRRLVSDGNINSDRIQEKVDSIDD
IRESfinder result
IRESfinder score
0.29647781
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page