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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

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Institute of Life sciences, Bhubaneswar, India

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