top of page
mmu_circAtp2c1_2271
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp2c1_2271
mm39_Chr. Position ID:
chr9|105295742|105345016|-
Gene name:
Atp2c1
Transcript:
ENSMUST00000177074.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
22
Exon/intron indexes:
24,23,22,21,20,19,18,17,16,15,14,13,12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1638,3030,4399,5626,12951,14110,16508,20797,24222,24402,26674,27508,30278,33260,34231,34990,41116,42473,46082,48039,49157
Genomic length:
49274
Exon/intron sizes in nt:
1,48,11,76,91,67,51,98,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr9:105295344-105295742|chr9:105345016-105347235
Splice length:
2271
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCTGATCTTCAGAATGGCTTAAACAAATCTGAAGTTAGTCATAGGCGAGCCTTCCATGGTTGGAATGAATTTGATATCAGTGAAGATGAACCATTATGGAAGAAGTATATTTCTCAGTTTAAAAATCCCCTTATCATGCTGCTCCTGGCGTCTGCGGTCATCAGCATTTTAATGCGCCAGTTTGATGATGCCGTCAGTATCACTGTGGCAATAGTAATTGTCGTCACTGTGGCCTTTGTTCAGGAATATCGTTCAGAAAAATCTCTAGAAGAATTGAGTAAACTTGTGCCACCAGAATGCCATTGTGTGCGTGAAGGAAAACTGGAGCATACACTTGCCCGAGACTTGGTTCCAGGTGACACAGTTTGTCTCTCTGTGGGGGACAGAGTTCCTGCGGACTTACGCTTATTTGAGGCTGTGGATCTTTCTGTGGATGAGTCTAGCTTGACAGGAGAGACAGCTCCGTGCTCTAAAGTGACAGCCCCTCAGCCAGCTGCTAATGGAGATCTTGCGTCAAGAAGTAACATCGCCTTCATGGGGACACTGGTCAGATGTGGCAAAGCAAAGGGTATTGTCATTGGAACAGGAGAAAATTCTGAATTTGGAGAGGTCTTTAAGATGATGCAGGCAGAAGAAGCACCAAAAACTCCTCTGCAGAAGAGCATGGACCTCTTAGGCAAGCAGCTGTCCTTTTACTCCTTTGGTATAATAGGTATCATCATGTTGGTTGGCTGGTTACTAGGAAAAGACATTCTGGAAATGTTCACTATTAGTGTAAGCTTGGCTGTAGCTGCAATTCCTGAAGGCCTGCCTATTGTGGTCACGGTGACTCTAGCCCTTGGTGTTATGAGAATGGTGAAGAAAAGGGCTATTGTAAAGAAATTGCCTATTGTGGAAACACTGGGCTGCTGTAATGTGATTTGTTCAGATAAAACTGGAACCCTGACGAAGAACGAGATGACTGTTACTCACATCCTCACTTCCGATGGCCTGCATGCTGAGGTCACTGGAGTTGGCTATAATCAGTTTGGTGAAGTGATCGTTGATGGTGATGTTGTTCATGGATTTTATAACCCAGCTGTTAGCAGAATTGTTGAGGCAGGCTGTGTGTGCAATGATGCTGTAATTAGGAACAACACTCTGATGGGAAAGCCAACTGAAGGAGCCTTAATCGCTCTTGCTATGAAGATGGGTCTTGATGGACTGCAACAAGACTACATCAGGAAAGCTGAATACCCTTTTAGTTCTGAGCAGAAGTGGATGGCTGTTAAGTGTGTGCACCGAACACAGCAGGACAGACCAGAGATTTGTTTTATGAAGGGTGCTTATGAGCAGGTGATTAAGTATTGTACTACATACAACAGCAAAGGGCAGACTTTGGCACTTACCCAGCAGCAGAGAGATTTGTATCAACAAGAGAAGGCACGGATGGGCTCAGCGGGACTCAGAGTTCTTGCCTTGGCGTCTGGTCCGGAACTGGGGCAGCTGACCTTCCTTGGCCTGGTCGGAATCATTGACCCTCCTAGAACTGGTGTGAAGGAAGCTGTCACAACACTCATTGCCTCAGGAGTCTCCATCAAAATGATCACTGGAGATTCTCAGGAGACTGCAATTGCCATCGCTAGTCGTCTGGGATTGTACTCTAAGACTTCACAGTCCGTGTCTGGGGAAGAAGTCGATACAATGGAGGTGCAGCACCTTTCACAGATAGTGCCAAAGGTTGCAGTATTTTACAGAGCAAGCCCAAGACACAAGATGAAAATTATTAAGTCTCTACAGAAGAACGGGGCAGTTGTAGCCATGACAGGAGATGGGGTAAATGATGCAGTTGCTCTCAAGGCTGCAGACATTGGAGTTGCGATGGGCCAGACTGGCACCGATGTTTGCAAAGAGGCTGCAGACATGATCTTGGTGGATGATGATTTCCAAACCATCATGTCTGCAATAGAAGAGGGTAAAGGCATTTATAATAACATTAAAAATTTTGTTAGATTTCAACTGAGCACGAGTATAGCAGCATTAACTTTAATCTCATTGGCTACGTTAATGAACTTTCCTAACCCTCTCAATGCAATGCAGATTTTGTGGATCAATATTATAATGGATGGACCCCCAGCTCAGAGCCTTGGAGTAGAGCCAGTGGATAAAGATGTCATTCGAAAACCGCCTCGAAACTGGAAGGACAGCATTTTGACAAAAAACTTGATACTTAAAATACTTGTTTCATCAATAATCATTGTTTGTGGGACTTTGTTTGTCTTCTGGCGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGAAGGACAGCATTTTGACA
59.11
AACCATGGAAGGCTCGCC
60.04
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGGAAGGACAGCATTTTGAC
59.11
AACCATGGAAGGCTCGCC
60.04
159
PCR template sequence:
AAACTGGAAGGACAGCATTTTGACAAAAAACTTGATACTTAAAATACTTGTTTCATCAATAATCATTGTTTGTGGGACTTTGTTTGTCTTCTGGCGAGAGGCTGATCTTCAGAATGGCTTAAACAAATCTGAAGTTAGTCATAGGCGAGCCTTCCATGGTTGGAATGAATTTGATATCAGTGAAGATGAACCATTATGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(2), mmu-miR-7a-1-3p(2), mmu-miR-9-5p(1), mmu-miR-20b-5p(1), mmu-miR-15a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-92a-3p(1), mmu-miR-106b-5p(1), mmu-miR-335-5p(1), mmu-miR-33-5p(1), mmu-miR-298-5p(1), mmu-miR-217-5p(1), mmu-miR-222-3p(1), mmu-miR-203-3p(1), mmu-miR-128-3p(1), mmu-miR-22-3p(1), mmu-miR-96-5p(1), mmu-miR-194-5p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-384-3p(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1), mmu-miR-188-3p(1), mmu-miR-1199-5p(1), mmu-miR-1904(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCTGGCGAGAGGCTGATCTTCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP2C1_2271_ORF_1
1.0446
0.136798969
1
4407
ORF sequence:
ATGCTGCTCCTGGCGTCTGCGGTCATCAGCATTTTAATGCGCCAGTTTGATGATGCCGTCAGTATCACTGTGGCAATAGTAATTGTCGTCACTGTGGCCTTTGTTCAGGAATATCGTTCAGAAAAATCTCTAGAAGAATTGAGTAAACTTGTGCCACCAGAATGCCATTGTGTGCGTGAAGGAAAACTGGAGCATACACTTGCCCGAGACTTGGTTCCAGGTGACACAGTTTGTCTCTCTGTGGGGGACAGAGTTCCTGCGGACTTACGCTTATTTGAGGCTGTGGATCTTTCTGTGGATGAGTCTAGCTTGACAGGAGAGACAGCTCCGTGCTCTAAAGTGACAGCCCCTCAGCCAGCTGCTAATGGAGATCTTGCGTCAAGAAGTAACATCGCCTTCATGGGGACACTGGTCAGATGTGGCAAAGCAAAGGGTATTGTCATTGGAACAGGAGAAAATTCTGAATTTGGAGAGGTCTTTAAGATGATGCAGGCAGAAGAAGCACCAAAAACTCCTCTGCAGAAGAGCATGGACCTCTTAGGCAAGCAGCTGTCCTTTTACTCCTTTGGTATAATAGGTATCATCATGTTGGTTGGCTGGTTACTAGGAAAAGACATTCTGGAAATGTTCACTATTAGTGTAAGCTTGGCTGTAGCTGCAATTCCTGAAGGCCTGCCTATTGTGGTCACGGTGACTCTAGCCCTTGGTGTTATGAGAATGGTGAAGAAAAGGGCTATTGTAAAGAAATTGCCTATTGTGGAAACACTGGGCTGCTGTAATGTGATTTGTTCAGATAAAACTGGAACCCTGACGAAGAACGAGATGACTGTTACTCACATCCTCACTTCCGATGGCCTGCATGCTGAGGTCACTGGAGTTGGCTATAATCAGTTTGGTGAAGTGATCGTTGATGGTGATGTTGTTCATGGATTTTATAACCCAGCTGTTAGCAGAATTGTTGAGGCAGGCTGTGTGTGCAATGATGCTGTAATTAGGAACAACACTCTGATGGGAAAGCCAACTGAAGGAGCCTTAATCGCTCTTGCTATGAAGATGGGTCTTGATGGACTGCAACAAGACTACATCAGGAAAGCTGAATACCCTTTTAGTTCTGAGCAGAAGTGGATGGCTGTTAAGTGTGTGCACCGAACACAGCAGGACAGACCAGAGATTTGTTTTATGAAGGGTGCTTATGAGCAGGTGATTAAGTATTGTACTACATACAACAGCAAAGGGCAGACTTTGGCACTTACCCAGCAGCAGAGAGATTTGTATCAACAAGAGAAGGCACGGATGGGCTCAGCGGGACTCAGAGTTCTTGCCTTGGCGTCTGGTCCGGAACTGGGGCAGCTGACCTTCCTTGGCCTGGTCGGAATCATTGACCCTCCTAGAACTGGTGTGAAGGAAGCTGTCACAACACTCATTGCCTCAGGAGTCTCCATCAAAATGATCACTGGAGATTCTCAGGAGACTGCAATTGCCATCGCTAGTCGTCTGGGATTGTACTCTAAGACTTCACAGTCCGTGTCTGGGGAAGAAGTCGATACAATGGAGGTGCAGCACCTTTCACAGATAGTGCCAAAGGTTGCAGTATTTTACAGAGCAAGCCCAAGACACAAGATGAAAATTATTAAGTCTCTACAGAAGAACGGGGCAGTTGTAGCCATGACAGGAGATGGGGTAAATGATGCAGTTGCTCTCAAGGCTGCAGACATTGGAGTTGCGATGGGCCAGACTGGCACCGATGTTTGCAAAGAGGCTGCAGACATGATCTTGGTGGATGATGATTTCCAAACCATCATGTCTGCAATAGAAGAGGGTAAAGGCATTTATAATAACATTAAAAATTTTGTTAGATTTCAACTGAGCACGAGTATAGCAGCATTAACTTTAATCTCATTGGCTACGTTAATGAACTTTCCTAACCCTCTCAATGCAATGCAGATTTTGTGGATCAATATTATAATGGATGGACCCCCAGCTCAGAGCCTTGGAGTAGAGCCAGTGGATAAAGATGTCATTCGAAAACCGCCTCGAAACTGGAAGGACAGCATTTTGACAAAAAACTTGATACTTAAAATACTTGTTTCATCAATAATCATTGTTTGTGGGACTTTGTTTGTCTTCTGGCGAGAGGCTGATCTTCAGAATGGCTTAAACAAATCTGAAGTTAGTCATAGGCGAGCCTTCCATGGTTGGAATGAATTTGATATCAGTGAAGATGAACCATTATGGAAGAAGTATATTTCTCAGTTTAAAAATCCCCTTATCATGCTGCTCCTGGCGTCTGCGGTCATCAGCATTTTAATGCGCCAGTTTGATGATGCCGTCAGTATCACTGTGGCAATAGTAATTGTCGTCACTGTGGCCTTTGTTCAGGAATATCGTTCAGAAAAATCTCTAGAAGAATTGAGTAAACTTGTGCCACCAGAATGCCATTGTGTGCGTGAAGGAAAACTGGAGCATACACTTGCCCGAGACTTGGTTCCAGGTGACACAGTTTGTCTCTCTGTGGGGGACAGAGTTCCTGCGGACTTACGCTTATTTGAGGCTGTGGATCTTTCTGTGGATGAGTCTAGCTTGACAGGAGAGACAGCTCCGTGCTCTAAAGTGACAGCCCCTCAGCCAGCTGCTAATGGAGATCTTGCGTCAAGAAGTAACATCGCCTTCATGGGGACACTGGTCAGATGTGGCAAAGCAAAGGGTATTGTCATTGGAACAGGAGAAAATTCTGAATTTGGAGAGGTCTTTAAGATGATGCAGGCAGAAGAAGCACCAAAAACTCCTCTGCAGAAGAGCATGGACCTCTTAGGCAAGCAGCTGTCCTTTTACTCCTTTGGTATAATAGGTATCATCATGTTGGTTGGCTGGTTACTAGGAAAAGACATTCTGGAAATGTTCACTATTAGTGTAAGCTTGGCTGTAGCTGCAATTCCTGAAGGCCTGCCTATTGTGGTCACGGTGACTCTAGCCCTTGGTGTTATGAGAATGGTGAAGAAAAGGGCTATTGTAAAGAAATTGCCTATTGTGGAAACACTGGGCTGCTGTAATGTGATTTGTTCAGATAAAACTGGAACCCTGACGAAGAACGAGATGACTGTTACTCACATCCTCACTTCCGATGGCCTGCATGCTGAGGTCACTGGAGTTGGCTATAATCAGTTTGGTGAAGTGATCGTTGATGGTGATGTTGTTCATGGATTTTATAACCCAGCTGTTAGCAGAATTGTTGAGGCAGGCTGTGTGTGCAATGATGCTGTAATTAGGAACAACACTCTGATGGGAAAGCCAACTGAAGGAGCCTTAATCGCTCTTGCTATGAAGATGGGTCTTGATGGACTGCAACAAGACTACATCAGGAAAGCTGAATACCCTTTTAGTTCTGAGCAGAAGTGGATGGCTGTTAAGTGTGTGCACCGAACACAGCAGGACAGACCAGAGATTTGTTTTATGAAGGGTGCTTATGAGCAGGTGATTAAGTATTGTACTACATACAACAGCAAAGGGCAGACTTTGGCACTTACCCAGCAGCAGAGAGATTTGTATCAACAAGAGAAGGCACGGATGGGCTCAGCGGGACTCAGAGTTCTTGCCTTGGCGTCTGGTCCGGAACTGGGGCAGCTGACCTTCCTTGGCCTGGTCGGAATCATTGACCCTCCTAGAACTGGTGTGAAGGAAGCTGTCACAACACTCATTGCCTCAGGAGTCTCCATCAAAATGATCACTGGAGATTCTCAGGAGACTGCAATTGCCATCGCTAGTCGTCTGGGATTGTACTCTAAGACTTCACAGTCCGTGTCTGGGGAAGAAGTCGATACAATGGAGGTGCAGCACCTTTCACAGATAGTGCCAAAGGTTGCAGTATTTTACAGAGCAAGCCCAAGACACAAGATGAAAATTATTAAGTCTCTACAGAAGAACGGGGCAGTTGTAGCCATGACAGGAGATGGGGTAAATGATGCAGTTGCTCTCAAGGCTGCAGACATTGGAGTTGCGATGGGCCAGACTGGCACCGATGTTTGCAAAGAGGCTGCAGACATGATCTTGGTGGATGATGATTTCCAAACCATCATGTCTGCAATAGAAGAGGGTAAAGGCATTTATAATAACATTAAAAATTTTGTTAGATTTCAACTGAGCACGAGTATAGCAGCATTAACTTTAATCTCATTGGCTACGTTAATGAACTTTCCTAACCCTCTCAATGCAATGCAGATTTTGTGGATCAATATTATAATGGATGGACCCCCAGCTCAGAGCCTTGGAGTAGAGCCAGTGGATAAAGATGTCATTCGAAAACCGCCTCGAAACTGGAAGGACAGCATTTTGACAAAAAACTTGATACTTAAAATACTTGTTTCATCAATAATCATTGTTTGTGGGACTTTGTTTGTCTTCTGGCGAGAG
Peptide sequence:
MLLLASAVISILMRQFDDAVSITVAIVIVVTVAFVQEYRSEKSLEELSKLVPPECHCVREGKLEHTLARDLVPGDTVCLSVGDRVPADLRLFEAVDLSVDESSLTGETAPCSKVTAPQPAANGDLASRSNIAFMGTLVRCGKAKGIVIGTGENSEFGEVFKMMQAEEAPKTPLQKSMDLLGKQLSFYSFGIIGIIMLVGWLLGKDILEMFTISVSLAVAAIPEGLPIVVTVTLALGVMRMVKKRAIVKKLPIVETLGCCNVICSDKTGTLTKNEMTVTHILTSDGLHAEVTGVGYNQFGEVIVDGDVVHGFYNPAVSRIVEAGCVCNDAVIRNNTLMGKPTEGALIALAMKMGLDGLQQDYIRKAEYPFSSEQKWMAVKCVHRTQQDRPEICFMKGAYEQVIKYCTTYNSKGQTLALTQQQRDLYQQEKARMGSAGLRVLALASGPELGQLTFLGLVGIIDPPRTGVKEAVTTLIASGVSIKMITGDSQETAIAIASRLGLYSKTSQSVSGEEVDTMEVQHLSQIVPKVAVFYRASPRHKMKIIKSLQKNGAVVAMTGDGVNDAVALKAADIGVAMGQTGTDVCKEAADMILVDDDFQTIMSAIEEGKGIYNNIKNFVRFQLSTSIAALTLISLATLMNFPNPLNAMQILWINIIMDGPPAQSLGVEPVDKDVIRKPPRNWKDSILTKNLILKILVSSIIIVCGTLFVFWREADLQNGLNKSEVSHRRAFHGWNEFDISEDEPLWKKYISQFKNPLIMLLLASAVISILMRQFDDAVSITVAIVIVVTVAFVQEYRSEKSLEELSKLVPPECHCVREGKLEHTLARDLVPGDTVCLSVGDRVPADLRLFEAVDLSVDESSLTGETAPCSKVTAPQPAANGDLASRSNIAFMGTLVRCGKAKGIVIGTGENSEFGEVFKMMQAEEAPKTPLQKSMDLLGKQLSFYSFGIIGIIMLVGWLLGKDILEMFTISVSLAVAAIPEGLPIVVTVTLALGVMRMVKKRAIVKKLPIVETLGCCNVICSDKTGTLTKNEMTVTHILTSDGLHAEVTGVGYNQFGEVIVDGDVVHGFYNPAVSRIVEAGCVCNDAVIRNNTLMGKPTEGALIALAMKMGLDGLQQDYIRKAEYPFSSEQKWMAVKCVHRTQQDRPEICFMKGAYEQVIKYCTTYNSKGQTLALTQQQRDLYQQEKARMGSAGLRVLALASGPELGQLTFLGLVGIIDPPRTGVKEAVTTLIASGVSIKMITGDSQETAIAIASRLGLYSKTSQSVSGEEVDTMEVQHLSQIVPKVAVFYRASPRHKMKIIKSLQKNGAVVAMTGDGVNDAVALKAADIGVAMGQTGTDVCKEAADMILVDDDFQTIMSAIEEGKGIYNNIKNFVRFQLSTSIAALTLISLATLMNFPNPLNAMQILWINIIMDGPPAQSLGVEPVDKDVIRKPPRNWKDSILTKNLILKILVSSIIIVCGTLFVFWRE
IRESfinder result
IRESfinder score
0.581259716
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page