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mmu_circIde_1250

Basic information of circular RNA
PanCircBase ID:

mmu_circIde_1250

mm39_Chr. Position ID:

chr19|37281292|37306587|-

Gene name:

Ide

Transcript:

ENSMUST00000131070.3

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

10

Exon/intron indexes:

12,11,10,9,8,7,6,5,4,3

Exon/intron offsets:

0,5894,8189,9616,10086,10940,11511,14083,21254,25087

Genomic length:

25295

Exon/intron sizes in nt:

10,31,04,81,92,93,16,30,00,00,00,00,000

Flanking exon/introns:

chr19:37275573-37281292|chr19:37306587-37307826

Splice length:

1250

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTTCACTGTCAGACCCTCCAAATATTCCTGGCTTAAGTCATTTTTGTGAACATATGCTGTTTTTGGGAACCAAGAAATATCCTAAAGAAAATGAATATAGCCAGTTTCTCAGTGAACATGCTGGAAGTTCAAATGCATTCACCAGTGGAGAACACACCAATTATTATTTCGATGTTTCCCATGAACACTTGGAAGGAGCCCTGGACAGGTTTGCGCAGTTTTTCCTGTGCCCCTTGTTTGATGCAAGTTGTAAAGACAGAGAGGTGAACGCTGTCGATTCAGAACATGAGAAGAATGTGATGAACGATGCCTGGAGACTCTTCCAGCTGGAAAAGGCTACGGGGAACCCCAAACACCCCTTCAGCAAATTTGGGACAGGAAACAAATATACTCTAGAGACTCGGCCCAACCAAGAAGGCATCGACGTAAGGGAAGAGCTCTTGAAATTTCACTCTACGTATTATTCGTCCAATCTGATGGCGATTTGTGTTTTAGGTCGAGAATCCTTAGACGACCTCACTAACCTGGTGGTGAAGCTGTTCTCCGAGGTGGAGAACAAGAACGTTCCTCTGCCTGAGTTCCCTGAGCACCCTTTCCAGGAAGAGCATCTCAGGCAACTTTATAAAATAGTACCCATTAAGGATATTAGAAATCTTTATGTGACATTTCCCATACCAGACCTTCAGCAGTACTACAAATCCAATCCTGGTCATTATCTTGGTCATCTAATTGGGCACGAAGGTCCTGGAAGCCTGTTGTCAGAACTCAAATCAAAGGGCTGGGTGAATACCCTGGTTGGTGGACAGAAGGAAGGAGCCCGAGGTTTTATGTTTTTTATCATTAATGTGGACTTAACTGAAGAAGGGTTATTGCACGTTGAAGATATAATTTTGCACATGTTTCAATACATTCAGAAGCTACGTGCAGAAGGACCTCAAGAATGGGTTTTCCAAGAGTGCAAGGACTTGAATGCTGTTGCTTTCAGATTTAAAGATAAAGAGAGACCACGAGGCTATACGTCCAAGATTGCAGGAAAGTTGCACTATTATCCCCTAAATGGAGTGCTCACAGCTGAATATCTATTGGAGGAATTTAGACCCGACTTGATAGACATGGTTCTTGATAAACTCAGACCAGAAAATGTGCGGGTGGCAATAGTTTCCAAATCATTTGAAGGGAAAACTGACCGCACAGAGCAGTGGTATGGAACACAGTATAAGCAAGAAGCTATCCCAGAGGACATCATTCAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AAGGGAAAACTGACCGCACA

60.11

TCTTGGTTCCCAAAAACAGCA

58.54

152

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TGAAGGGAAAACTGACCGCA

59.82

TCTTGGTTCCCAAAAACAGCA

58.54

154

PCR template sequence:

GGCAATAGTTTCCAAATCATTTGAAGGGAAAACTGACCGCACAGAGCAGTGGTATGGAACACAGTATAAGCAAGAAGCTATCCCAGAGGACATCATTCAGGTTCACTGTCAGACCCTCCAAATATTCCTGGCTTAAGTCATTTTTGTGAACATATGCTGTTTTTGGGAACCAAGAAATATCCTAAAGAAAATGAATATAG

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

13

Interacting miRNAs (#binding sites)

mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-223-3p(1), mmu-miR-322-5p(1), mmu-miR-19a-3p(1), mmu-miR-298-5p(1), mmu-miR-136-5p(1), mmu-miR-96-5p(1), mmu-miR-301b-3p(1), mmu-miR-541-5p(1), mmu-miR-301a-3p(1), mmu-miR-369-3p(1), mmu-miR-532-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GGACATCATTCAGGTTCACTGTCAGA

siRNA sets

AGTGAACCTGAATGATGTC, TGACAGTGAACCTGAATGA, GTGAACCTGAATGATGTCC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCIDE_1250_ORF_1

0.9221

0.12663872

0.997066851

1233

ORF sequence:

ATGCTGTTTTTGGGAACCAAGAAATATCCTAAAGAAAATGAATATAGCCAGTTTCTCAGTGAACATGCTGGAAGTTCAAATGCATTCACCAGTGGAGAACACACCAATTATTATTTCGATGTTTCCCATGAACACTTGGAAGGAGCCCTGGACAGGTTTGCGCAGTTTTTCCTGTGCCCCTTGTTTGATGCAAGTTGTAAAGACAGAGAGGTGAACGCTGTCGATTCAGAACATGAGAAGAATGTGATGAACGATGCCTGGAGACTCTTCCAGCTGGAAAAGGCTACGGGGAACCCCAAACACCCCTTCAGCAAATTTGGGACAGGAAACAAATATACTCTAGAGACTCGGCCCAACCAAGAAGGCATCGACGTAAGGGAAGAGCTCTTGAAATTTCACTCTACGTATTATTCGTCCAATCTGATGGCGATTTGTGTTTTAGGTCGAGAATCCTTAGACGACCTCACTAACCTGGTGGTGAAGCTGTTCTCCGAGGTGGAGAACAAGAACGTTCCTCTGCCTGAGTTCCCTGAGCACCCTTTCCAGGAAGAGCATCTCAGGCAACTTTATAAAATAGTACCCATTAAGGATATTAGAAATCTTTATGTGACATTTCCCATACCAGACCTTCAGCAGTACTACAAATCCAATCCTGGTCATTATCTTGGTCATCTAATTGGGCACGAAGGTCCTGGAAGCCTGTTGTCAGAACTCAAATCAAAGGGCTGGGTGAATACCCTGGTTGGTGGACAGAAGGAAGGAGCCCGAGGTTTTATGTTTTTTATCATTAATGTGGACTTAACTGAAGAAGGGTTATTGCACGTTGAAGATATAATTTTGCACATGTTTCAATACATTCAGAAGCTACGTGCAGAAGGACCTCAAGAATGGGTTTTCCAAGAGTGCAAGGACTTGAATGCTGTTGCTTTCAGATTTAAAGATAAAGAGAGACCACGAGGCTATACGTCCAAGATTGCAGGAAAGTTGCACTATTATCCCCTAAATGGAGTGCTCACAGCTGAATATCTATTGGAGGAATTTAGACCCGACTTGATAGACATGGTTCTTGATAAACTCAGACCAGAAAATGTGCGGGTGGCAATAGTTTCCAAATCATTTGAAGGGAAAACTGACCGCACAGAGCAGTGGTATGGAACACAGTATAAGCAAGAAGCTATCCCAGAGGACATCATTCAGGTTCACTGTCAGACCCTCCAAATATTCCTGGCTTAA

Peptide sequence:

MLFLGTKKYPKENEYSQFLSEHAGSSNAFTSGEHTNYYFDVSHEHLEGALDRFAQFFLCPLFDASCKDREVNAVDSEHEKNVMNDAWRLFQLEKATGNPKHPFSKFGTGNKYTLETRPNQEGIDVREELLKFHSTYYSSNLMAICVLGRESLDDLTNLVVKLFSEVENKNVPLPEFPEHPFQEEHLRQLYKIVPIKDIRNLYVTFPIPDLQQYYKSNPGHYLGHLIGHEGPGSLLSELKSKGWVNTLVGGQKEGARGFMFFIINVDLTEEGLLHVEDIILHMFQYIQKLRAEGPQEWVFQECKDLNAVAFRFKDKERPRGYTSKIAGKLHYYPLNGVLTAEYLLEEFRPDLIDMVLDKLRPENVRVAIVSKSFEGKTDRTEQWYGTQYKQEAIPEDIIQVHCQTLQIFLA

IRESfinder result

IRESfinder score

0.676637841

IRES/non IRES

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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