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mmu_circCrb1_3932
Basic information of circular RNA
PanCircBase ID:
mmu_circCrb1_3932
mm39_Chr. Position ID:
chr1|139159401|139265346|-
Gene name:
Crb1
Transcript:
ENSMUST00000059825.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,3063,5158,9459,11314,16455,82907,91563,96487,105366
Genomic length:
105945
Exon/intron sizes in nt:
1,27,12,99,07,16,65,48,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:139126525-139159401|chr1:139265346-139304578
Splice length:
3932
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_165838
Human Ortholog IDs:
Mature spliced Sequence:
ATTCATTTTGCAATAAAAACAATACCAGGTGCCTTTCAGGTCCTTGCCAAAACAATTCTACGTGCAAGCATTTTCCACAAGACAACAATTGTTGCTTAGACACAGCCAATAATTTGGACAAAGACTGTGAAGATCTGAAAGACCCTTGCTTCTCGAGTCCCTGCCAAGGAATTGCCACTTGTGTGAAAATCCCAGGGGAAGGGAACTTCCTGTGTCAGTGTCCTCCTGGGTACAGCGGGCTGAACTGTGAAACTGCCACCAATTCCTGTGGAGGGAACCTCTGCCAACATGGAGGCACCTGCCGTAAAGACCCTGAGCACCCTGTCTGTATCTGCCCTCCTGGATATGCTGGAAGGTTCTGTGAGACTGATCACAATGAGTGTGCTTCTAGCCCTTGCCACAATGGGGCTATGTGCCAGGATGGAATCAATGGCTACTCCTGCTTCTGTGTGCCTGGATACCAAGGCAGGCATTGTGACTTGGAAGTGGATGAATGTGTTTCTGATCCCTGCAAGAATGAGGCTGTGTGCCTCAATGAGATAGGAAGATACACTTGTGTCTGCCCTCAAGAGTTTTCTGGCGTGAACTGTGAGTTGGAAATTGATGAATGCAGATCCCAGCCTTGTCTCCACGGTGCCACATGTCAGGACGCTCCAGGGGGCTACTCCTGTGACTGTGCACCTGGATTCCTTGGAGAGCACTGTGAACTCAGCGTTAATGAATGTGAAAGTCAGCCGTGTCTCCATGGAGGTCTATGTGTGGATGGAAGAAACAGTTACCACTGTGACTGCACAGGTAGTGGATTCACAGGGATGCACTGTGAGTCCTTGATTCCTCTTTGTTGGTCAAAGCCTTGTCACAACGACGCGACATGTGAAGATACTGTTGACAGCTATATTTGTCACTGCCGGCCTGGATACACAGGTGCCCTGTGTGAGACAGACATAAATGAATGCAGTAGCAACCCCTGCCAATTTTGGGGGGAATGTGTCGAGCTGTCCTCAGAGGGTCTATATGGAAACACTGCTGGCCTGCCTTCCTCCTTCAGCTATGTTGGAGCCTCGGGCTATGTGTGTATCTGTCAGCCTGGATTCACAGGAATTCACTGTGAAGAAGACGTTGATGAATGTTTACTGCACCCTTGCCTAAATGGTGGTACTTGTGAGAACCTGCCTGGGAATTATGCCTGTCACTGTCCCTTTGATGACACTTCTAGGACATTTTATGGAGGAGAAAACTGCTCAGAAATTCTCCTGGGCTGCACTCATCACCAGTGTCTGAACAATGGAAAATGTATCCCTCATTTCCAAAATGGCCAGCATGGATTCACTTGCCAGTGTCTTTCTGGCTATGCGGGGCCCCTGTGTGAAACTGTCACCACACTTTCATTTGGGAGCAATGGCTTCCTATGGGTCACAAGTGGCTCCCATACAGGCATAGGGCCAGAATGTAACATATCCTTGAGGTTTCACACTGTTCAACCAAACGCACTTCTCCTCATCCGAGGCAACAAGGACGTGTCTATGAAGCTGGAGTTGCTGAATGGTTGTGTTCACTTATCAATTGAAGTCTGGAATCAGTTAAAGGTGCTCCTGTCTATTTCTCACAACACCAGTGATGGAGAATGGCATTTCGTGGAGGTAACAATCGCAGAAACTCTAACCCTTGCCCTAGTTGGCGGCTCCTGCAAGGAGAAGTGCACCACCAAGTCTTCTGTTCCAGTTGAGAATCATCAATCAATATGTGCTTTGCAGGACTCTTTTTTGGGTGGCTTACCAATGGGGACAGCCAACAACAGTGTGTCTGTGCTTAACATCTATAATGTGCCGTCCACACCTTCCTTTGTAGGCTGTCTCCAAGACATTAGATTTGATTTGAATCACATTACTCTGGAGAACGTTTCATCTGGCCTGTCATCAAATGTTAAAGCAGGCTGCCTGGGAAAGGACTGGTGTGAAAGTCAACCCTGTCAAAACAGAGGACGCTGCATCAACTTGTGGCAGGGTTATCAGTGTGAATGTGACAGGCCCTATACAGGCTCCAACTGCCTGAAAGAGTATGTAGCGGGAAGATTTGGCCAAGATGACTCCACAGGATATGCGGCCTTTAGTGTTAATGATAATTATGGACAGAACTTCAGTCTTTCAATGTTTGTCCGAACACGTCAACCCCTGGGCTTACTTCTGGCTTTGGAAAATAGTACTTACCAGTATGTCAGTGTCTGGCTAGAGCACGGCAGCCTAGCACTGCAGACTCCAGGCTCTCCCAAGTTCATGGTAAACTTTTTTCTCAGTGATGGAAATGTTCACTTAATATCTTTGAGAATCAAACCAAATGAAATTGAACTGTATCAGTCTTCACAAAACCTAGGATTCATTTCTGTTCCTACATGGACAATTCGAAGAGGAGACGTCATCTTCATTGGTGGCTTACCTGACAGAGAGAAGACTGAAGTTTATGGTGGCTTCTTCAAAGGCTGTGTTCAAGATGTCAGATTAAACAGCCAGACTCTGGAATTCTTTCCCAATTCAACAAACAATGCATACGATGACCCAATTCTTGTCAATGTGACTCAAGGCTGTCCCGGAGACAACACATGTAAGTCCAACCCCTGTCATAATGGAGGTGTCTGCCACTCCCTGTGGGATGACTTCTCCTGCTCCTGCCCTACAAACACAGCGGGGAGAGCCTGCGAGCAAGTTCAGTGGTGTCAACTCAGCCCATGTCCTCCCACTGCAGAGTGCCAGCTGCTCCCTCAAGGGTTTGAATGTATCGCAAACGCTGTTTTCAGCGGATTAAGCAGAGAAATACTCTTCAGAAGCAATGGGAACATTACCAGAGAACTCACCAATATCACATTTGCTTTCAGAACACATGATACAAATGTGATGATATTGCATGCAGAAAAAGAACCAGAGTTTCTTAATATTAGCATTCAAGATGCCAGATTATTCTTTCAATTGCGAAGTGGCAACAGCTTTTATACGCTGCACCTGATGGGTTCCCAATTGGTGAATGATGGCACATGGCACCAAGTGACTTTCTCCATGATAGACCCAGTGGCCCAGACCTCCCGGTGGCAAATGGAGGTGAACGACCAGACACCCTTTGTGATAAGTGAAGTTGCTACTGGAAGCCTGAACTTTTTGAAGGACAATACAGACATCTATGTGGGTGACCAATCTGTTGACAATCCGAAAGGCCTGCAGGGCTGTCTGAGCACAATAGAGATTGGAGGCATATATCTTTCTTACTTTGAAAATCTACATGGTTTCCCTGGTAAGCCTCAGGAAGAGCAATTTCTCAAAGTTTCTACAAATATGGTACTTACTGGCTGTTTGCCATCAAATGCCTGCCACTCCAGCCCCTGTTTGCATGGAGGAAACTGTGAAGACAGCTACAGTTCTTATCGGTGTGCCTGTCTCTCGGGATGGTCAGGGACACACTGTGAAATCAACATTGATGAGTGCTTTTCTAGCCCCTGTATCCATGGCAACTGCTCTGATGGAGTTGCAGCCTACCACTGCAGGTGTGAGCCTGGATACACCGGTGTGAACTGTGAGGTGGATGTAGACAATTGCAAGAGTCATCAGTGTGCAAATGGGGCCACCTGTGTTCCTGAAGCTCATGGCTACTCTTGTCTCTGCTTTGGAAATTTTACCGGGAGATTTTGCAGACACAGCAGATTACCCTCAACAGTCTGTGGGAATGAGAAGAGAAACTTCACTTGCTACAATGGAGGCAGCTGCTCCATGTTCCAGGAGGACTGGCAATGTATGTGCTGGCCAGGTTTCACTGGAGAGTGGTGTGAAGAGGACATCAACGAGTGTGCCTCCGATCCCTGCATCAATGGAGGACTGTGCAGGGACTTGGTCAACAGGTTCCTATGCATCTGTGATGTGGCCTTCGCTGGCGAGCGCTGTGAGCTGGAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGATCCCTGCATCAATGGA
59.89
TGTGGAAAATGCTTGCACGT
59.26
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCGATCCCTGCATCAATGG
59.89
TGTGGAAAATGCTTGCACGT
59.26
178
PCR template sequence:
CTCCGATCCCTGCATCAATGGAGGACTGTGCAGGGACTTGGTCAACAGGTTCCTATGCATCTGTGATGTGGCCTTCGCTGGCGAGCGCTGTGAGCTGGACATTCATTTTGCAATAAAAACAATACCAGGTGCCTTTCAGGTCCTTGCCAAAACAATTCTACGTGCAAGCATTTTCCACAAGACAACAATTGTTGCTTAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
47
Interacting miRNAs (#binding sites)
mmu-miR-181b-5p(6), mmu-miR-181a-5p(5), mmu-miR-181d-5p(4), mmu-miR-27b-3p(3), mmu-miR-23b-3p(2), mmu-miR-27a-3p(2), mmu-miR-23a-3p(2), mmu-miR-128-3p(2), mmu-miR-136-5p(2), mmu-miR-182-5p(2), mmu-miR-224-5p(2), mmu-miR-377-3p(2), mmu-miR-484(2), mmu-miR-124-3p(1), mmu-miR-9-5p(1), mmu-miR-221-3p(1), mmu-miR-34c-5p(1), mmu-miR-30e-5p(1), mmu-miR-34a-5p(1), mmu-miR-205-5p(1), mmu-miR-322-5p(1), mmu-miR-33-5p(1), mmu-miR-30a-5p(1), mmu-miR-148b-3p(1), mmu-miR-30c-5p(1), mmu-miR-217-5p(1), mmu-miR-138-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-153-3p(1), mmu-miR-676-3p(1), mmu-miR-382-3p(1), mmu-miR-22-3p(1), mmu-miR-34b-5p(1), mmu-miR-705(1), mmu-miR-29b-2-5p(1), mmu-miR-342-3p(1), mmu-miR-1198-5p(1), mmu-miR-190b-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1), mmu-miR-3087-3p(1), mmu-miR-188-3p(1), mmu-miR-3470b(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTGAGCTGGACATTCATTTTGCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCRB1_3932_ORF_1
0.7855
0.039449701
1
3621
ORF sequence:
ATGTGCCAGGATGGAATCAATGGCTACTCCTGCTTCTGTGTGCCTGGATACCAAGGCAGGCATTGTGACTTGGAAGTGGATGAATGTGTTTCTGATCCCTGCAAGAATGAGGCTGTGTGCCTCAATGAGATAGGAAGATACACTTGTGTCTGCCCTCAAGAGTTTTCTGGCGTGAACTGTGAGTTGGAAATTGATGAATGCAGATCCCAGCCTTGTCTCCACGGTGCCACATGTCAGGACGCTCCAGGGGGCTACTCCTGTGACTGTGCACCTGGATTCCTTGGAGAGCACTGTGAACTCAGCGTTAATGAATGTGAAAGTCAGCCGTGTCTCCATGGAGGTCTATGTGTGGATGGAAGAAACAGTTACCACTGTGACTGCACAGGTAGTGGATTCACAGGGATGCACTGTGAGTCCTTGATTCCTCTTTGTTGGTCAAAGCCTTGTCACAACGACGCGACATGTGAAGATACTGTTGACAGCTATATTTGTCACTGCCGGCCTGGATACACAGGTGCCCTGTGTGAGACAGACATAAATGAATGCAGTAGCAACCCCTGCCAATTTTGGGGGGAATGTGTCGAGCTGTCCTCAGAGGGTCTATATGGAAACACTGCTGGCCTGCCTTCCTCCTTCAGCTATGTTGGAGCCTCGGGCTATGTGTGTATCTGTCAGCCTGGATTCACAGGAATTCACTGTGAAGAAGACGTTGATGAATGTTTACTGCACCCTTGCCTAAATGGTGGTACTTGTGAGAACCTGCCTGGGAATTATGCCTGTCACTGTCCCTTTGATGACACTTCTAGGACATTTTATGGAGGAGAAAACTGCTCAGAAATTCTCCTGGGCTGCACTCATCACCAGTGTCTGAACAATGGAAAATGTATCCCTCATTTCCAAAATGGCCAGCATGGATTCACTTGCCAGTGTCTTTCTGGCTATGCGGGGCCCCTGTGTGAAACTGTCACCACACTTTCATTTGGGAGCAATGGCTTCCTATGGGTCACAAGTGGCTCCCATACAGGCATAGGGCCAGAATGTAACATATCCTTGAGGTTTCACACTGTTCAACCAAACGCACTTCTCCTCATCCGAGGCAACAAGGACGTGTCTATGAAGCTGGAGTTGCTGAATGGTTGTGTTCACTTATCAATTGAAGTCTGGAATCAGTTAAAGGTGCTCCTGTCTATTTCTCACAACACCAGTGATGGAGAATGGCATTTCGTGGAGGTAACAATCGCAGAAACTCTAACCCTTGCCCTAGTTGGCGGCTCCTGCAAGGAGAAGTGCACCACCAAGTCTTCTGTTCCAGTTGAGAATCATCAATCAATATGTGCTTTGCAGGACTCTTTTTTGGGTGGCTTACCAATGGGGACAGCCAACAACAGTGTGTCTGTGCTTAACATCTATAATGTGCCGTCCACACCTTCCTTTGTAGGCTGTCTCCAAGACATTAGATTTGATTTGAATCACATTACTCTGGAGAACGTTTCATCTGGCCTGTCATCAAATGTTAAAGCAGGCTGCCTGGGAAAGGACTGGTGTGAAAGTCAACCCTGTCAAAACAGAGGACGCTGCATCAACTTGTGGCAGGGTTATCAGTGTGAATGTGACAGGCCCTATACAGGCTCCAACTGCCTGAAAGAGTATGTAGCGGGAAGATTTGGCCAAGATGACTCCACAGGATATGCGGCCTTTAGTGTTAATGATAATTATGGACAGAACTTCAGTCTTTCAATGTTTGTCCGAACACGTCAACCCCTGGGCTTACTTCTGGCTTTGGAAAATAGTACTTACCAGTATGTCAGTGTCTGGCTAGAGCACGGCAGCCTAGCACTGCAGACTCCAGGCTCTCCCAAGTTCATGGTAAACTTTTTTCTCAGTGATGGAAATGTTCACTTAATATCTTTGAGAATCAAACCAAATGAAATTGAACTGTATCAGTCTTCACAAAACCTAGGATTCATTTCTGTTCCTACATGGACAATTCGAAGAGGAGACGTCATCTTCATTGGTGGCTTACCTGACAGAGAGAAGACTGAAGTTTATGGTGGCTTCTTCAAAGGCTGTGTTCAAGATGTCAGATTAAACAGCCAGACTCTGGAATTCTTTCCCAATTCAACAAACAATGCATACGATGACCCAATTCTTGTCAATGTGACTCAAGGCTGTCCCGGAGACAACACATGTAAGTCCAACCCCTGTCATAATGGAGGTGTCTGCCACTCCCTGTGGGATGACTTCTCCTGCTCCTGCCCTACAAACACAGCGGGGAGAGCCTGCGAGCAAGTTCAGTGGTGTCAACTCAGCCCATGTCCTCCCACTGCAGAGTGCCAGCTGCTCCCTCAAGGGTTTGAATGTATCGCAAACGCTGTTTTCAGCGGATTAAGCAGAGAAATACTCTTCAGAAGCAATGGGAACATTACCAGAGAACTCACCAATATCACATTTGCTTTCAGAACACATGATACAAATGTGATGATATTGCATGCAGAAAAAGAACCAGAGTTTCTTAATATTAGCATTCAAGATGCCAGATTATTCTTTCAATTGCGAAGTGGCAACAGCTTTTATACGCTGCACCTGATGGGTTCCCAATTGGTGAATGATGGCACATGGCACCAAGTGACTTTCTCCATGATAGACCCAGTGGCCCAGACCTCCCGGTGGCAAATGGAGGTGAACGACCAGACACCCTTTGTGATAAGTGAAGTTGCTACTGGAAGCCTGAACTTTTTGAAGGACAATACAGACATCTATGTGGGTGACCAATCTGTTGACAATCCGAAAGGCCTGCAGGGCTGTCTGAGCACAATAGAGATTGGAGGCATATATCTTTCTTACTTTGAAAATCTACATGGTTTCCCTGGTAAGCCTCAGGAAGAGCAATTTCTCAAAGTTTCTACAAATATGGTACTTACTGGCTGTTTGCCATCAAATGCCTGCCACTCCAGCCCCTGTTTGCATGGAGGAAACTGTGAAGACAGCTACAGTTCTTATCGGTGTGCCTGTCTCTCGGGATGGTCAGGGACACACTGTGAAATCAACATTGATGAGTGCTTTTCTAGCCCCTGTATCCATGGCAACTGCTCTGATGGAGTTGCAGCCTACCACTGCAGGTGTGAGCCTGGATACACCGGTGTGAACTGTGAGGTGGATGTAGACAATTGCAAGAGTCATCAGTGTGCAAATGGGGCCACCTGTGTTCCTGAAGCTCATGGCTACTCTTGTCTCTGCTTTGGAAATTTTACCGGGAGATTTTGCAGACACAGCAGATTACCCTCAACAGTCTGTGGGAATGAGAAGAGAAACTTCACTTGCTACAATGGAGGCAGCTGCTCCATGTTCCAGGAGGACTGGCAATGTATGTGCTGGCCAGGTTTCACTGGAGAGTGGTGTGAAGAGGACATCAACGAGTGTGCCTCCGATCCCTGCATCAATGGAGGACTGTGCAGGGACTTGGTCAACAGGTTCCTATGCATCTGTGATGTGGCCTTCGCTGGCGAGCGCTGTGAGCTGGACATTCATTTTGCAATAAAAACAATACCAGGTGCCTTTCAGGTCCTTGCCAAAACAATTCTACGTGCAAGCATTTTCCACAAGACAACAATTGTTGCTTAG
Peptide sequence:
MCQDGINGYSCFCVPGYQGRHCDLEVDECVSDPCKNEAVCLNEIGRYTCVCPQEFSGVNCELEIDECRSQPCLHGATCQDAPGGYSCDCAPGFLGEHCELSVNECESQPCLHGGLCVDGRNSYHCDCTGSGFTGMHCESLIPLCWSKPCHNDATCEDTVDSYICHCRPGYTGALCETDINECSSNPCQFWGECVELSSEGLYGNTAGLPSSFSYVGASGYVCICQPGFTGIHCEEDVDECLLHPCLNGGTCENLPGNYACHCPFDDTSRTFYGGENCSEILLGCTHHQCLNNGKCIPHFQNGQHGFTCQCLSGYAGPLCETVTTLSFGSNGFLWVTSGSHTGIGPECNISLRFHTVQPNALLLIRGNKDVSMKLELLNGCVHLSIEVWNQLKVLLSISHNTSDGEWHFVEVTIAETLTLALVGGSCKEKCTTKSSVPVENHQSICALQDSFLGGLPMGTANNSVSVLNIYNVPSTPSFVGCLQDIRFDLNHITLENVSSGLSSNVKAGCLGKDWCESQPCQNRGRCINLWQGYQCECDRPYTGSNCLKEYVAGRFGQDDSTGYAAFSVNDNYGQNFSLSMFVRTRQPLGLLLALENSTYQYVSVWLEHGSLALQTPGSPKFMVNFFLSDGNVHLISLRIKPNEIELYQSSQNLGFISVPTWTIRRGDVIFIGGLPDREKTEVYGGFFKGCVQDVRLNSQTLEFFPNSTNNAYDDPILVNVTQGCPGDNTCKSNPCHNGGVCHSLWDDFSCSCPTNTAGRACEQVQWCQLSPCPPTAECQLLPQGFECIANAVFSGLSREILFRSNGNITRELTNITFAFRTHDTNVMILHAEKEPEFLNISIQDARLFFQLRSGNSFYTLHLMGSQLVNDGTWHQVTFSMIDPVAQTSRWQMEVNDQTPFVISEVATGSLNFLKDNTDIYVGDQSVDNPKGLQGCLSTIEIGGIYLSYFENLHGFPGKPQEEQFLKVSTNMVLTGCLPSNACHSSPCLHGGNCEDSYSSYRCACLSGWSGTHCEINIDECFSSPCIHGNCSDGVAAYHCRCEPGYTGVNCEVDVDNCKSHQCANGATCVPEAHGYSCLCFGNFTGRFCRHSRLPSTVCGNEKRNFTCYNGGSCSMFQEDWQCMCWPGFTGEWCEEDINECASDPCINGGLCRDLVNRFLCICDVAFAGERCELDIHFAIKTIPGAFQVLAKTILRASIFHKTTIVA
IRESfinder result
IRESfinder score
0.64953388
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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