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mmu_circNrxn1_1833
Basic information of circular RNA
PanCircBase ID:
mmu_circNrxn1_1833
mm39_Chr. Position ID:
chr17|90366912|90905057|-
Gene name:
Nrxn1
Transcript:
ENSMUST00000072671.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11
Exon/intron offsets:
0,102629,104307,148838,303275,501256,505820,529186,530363,538022
Genomic length:
538145
Exon/intron sizes in nt:
79,320,90,172,182,120,174,191,382,123
Flanking exon/introns:
chr17:90344812-90366912|chr17:90905057-90928292
Splice length:
1833
Other database IDs:
CIRCpedia: MMU_CIRCpedia_33632
CIRCpedia: HSA_CIRCpedia_134208
Human Ortholog IDs:
Mature spliced Sequence:
GCAAAGGTCCTGAGACCCTTTTTGCTGGCTATAACCTCAATGATAATGAATGGCACACAGTGCGTGTGGTTCGGCGAGGAAAAAGTTTAAAGCTAACCGTGGATGATCAACAAGCCATGACAGGCCAAATGGCAGGTGATCATACAAGGCTGGAGTTTCATAACATAGAGACAGGCATCATCACCGAACGACGCTACCTTTCTTCTGTCCCCTCCAATTTCATTGGGCACCTGCAAAGCCTGACATTTAATGGAATGGCATACATAGACTTGTGCAAAAATGGTGATATAGATTACTGTGAACTCAATGCCAGGTTTGGATTCAGGAACATCATCGCAGATCCTGTCACCTTCAAGACCAAATCGAGCTATGTTGCCTTAGCTACATTGCAAGCCTACACCTCTATGCATCTATTTTTCCAATTCAAGACAACATCTCTAGATGGACTAATTCTGTATAACAGTGGGGATGGAAATGACTTTATTGTGGTTGAATTAGTTAAAGGGTACTTACATTATGTGTTTGACTTGGGAAACGGTGCTAACCTCATCAAAGGGAGCTCAAACAAACCACTCAACGACAATCAGTGGCACAATGTGATGATTTCACGGGACACCAGCAATCTCCACACAGTAAAGATCGACACAAAAATCACAACACAAATCACTGCGGGAGCCAGAAATCTAGACCTCAAGAGTGACTTGTATATTGGAGGAGTGGCTAAAGAAACATATAAATCCCTGCCAAAACTGGTCCATGCCAAAGAAGGCTTTCAAGGTTGCCTGGCATCTGTGGACTTGAATGGCAGACTTCCAGATCTCATCTCGGATGCTCTCTTCTGCAATGGGCAAATTGAGAGAGGATGCGAAGGGCCCAGCACAACCTGCCAAGAGGATTCATGTTCAAATCAAGGCGTTTGCTTGCAGCAATGGGATGGCTTCAGCTGTGACTGTAGCATGACTTCCTTCAGTGGCCCACTCTGCAATGACCCTGGGACAACATATATCTTTAGCAAAGGTGGTGGACAGATTACATATAAGTGGCCTCCCAATGACCGCCCCAGTACACGAGCAGACAGGCTGGCCATCGGATTTAGCACTGTCCAGAAGGAAGCCGTGTTGGTGCGTGTGGACAGTTCCTCAGGACTGGGTGACTACCTGGAGCTGCACATACACCAAGGAAAAATTGGAGTTAAGTTTAATGTTGGGACAGATGACATCGCCATCGAAGAGTCTAATGCAATCATTAATGATGGGAAATACCATGTAGTACGTTTCACAAGGAGTGGTGGCAATGCCACGTTACAGGTGGACAGCTGGCCAGTTATCGAACGCTACCCTGCAGGAAACAATGATAACGAGCGCCTGGCGATTGCTAGACAGCGAATTCCATATCGACTTGGTCGAGTAGTTGATGAATGGCTACTCGACAAAGGGCGTCAGCTCACAATCTTCAATAGCCAAGCAACCATAATAATTGGCGGGAAAGAGCAGGGCCAGCCCTTCCAGGGCCAGCTCTCTGGTCTTTACTACAATGGCTTGAAAGTTCTGAATATGGCAGCAGAGAACGATGCCAACATCGCCATAGTGGGGAATGTGAGGCTGGTCGGTGAAGTGCCTTCCTCTATGACAACTGAGTCGACAGCCACTGCCATGCAGTCTGAGATGTCCACCTCAATCATGGAGACCACCACAACCCTGGCTACCAGCACAGCTAGAAGAGGCAAGCCCCCCACAAAGGAACCCATCAGCCAGACCACAGATGACATCCTTGTGGCCTCGGCAGAGTGTCCCAGTGACGATGAGGACATTGACCCCTGTGAGCCGAGCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGACATCCTTGTGGCCTCG
60.11
ACTTTTTCCTCGCCGAACCA
60.18
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGACATCCTTGTGGCCTCG
60.11
CTTTTTCCTCGCCGAACCAC
59.76
157
PCR template sequence:
ACAAAGGAACCCATCAGCCAGACCACAGATGACATCCTTGTGGCCTCGGCAGAGTGTCCCAGTGACGATGAGGACATTGACCCCTGTGAGCCGAGCTCAGGCAAAGGTCCTGAGACCCTTTTTGCTGGCTATAACCTCAATGATAATGAATGGCACACAGTGCGTGTGGTTCGGCGAGGAAAAAGTTTAAAGCTAACCGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-23b-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-135a-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-328-3p(1), mmu-miR-217-5p(1), mmu-miR-196a-5p(1), mmu-miR-23a-3p(1), mmu-miR-138-5p(1), mmu-miR-541-5p(1), mmu-miR-224-5p(1), mmu-miR-673-5p(1), mmu-miR-5101(1), mmu-miR-3470b(1), mmu-miR-3061-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCCGAGCTCAGGCAAAGGTCCTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNRXN1_1833_ORF_1
0.9619
0.220286389
1
3549
ORF sequence:
ATGACAGGCCAAATGGCAGGTGATCATACAAGGCTGGAGTTTCATAACATAGAGACAGGCATCATCACCGAACGACGCTACCTTTCTTCTGTCCCCTCCAATTTCATTGGGCACCTGCAAAGCCTGACATTTAATGGAATGGCATACATAGACTTGTGCAAAAATGGTGATATAGATTACTGTGAACTCAATGCCAGGTTTGGATTCAGGAACATCATCGCAGATCCTGTCACCTTCAAGACCAAATCGAGCTATGTTGCCTTAGCTACATTGCAAGCCTACACCTCTATGCATCTATTTTTCCAATTCAAGACAACATCTCTAGATGGACTAATTCTGTATAACAGTGGGGATGGAAATGACTTTATTGTGGTTGAATTAGTTAAAGGGTACTTACATTATGTGTTTGACTTGGGAAACGGTGCTAACCTCATCAAAGGGAGCTCAAACAAACCACTCAACGACAATCAGTGGCACAATGTGATGATTTCACGGGACACCAGCAATCTCCACACAGTAAAGATCGACACAAAAATCACAACACAAATCACTGCGGGAGCCAGAAATCTAGACCTCAAGAGTGACTTGTATATTGGAGGAGTGGCTAAAGAAACATATAAATCCCTGCCAAAACTGGTCCATGCCAAAGAAGGCTTTCAAGGTTGCCTGGCATCTGTGGACTTGAATGGCAGACTTCCAGATCTCATCTCGGATGCTCTCTTCTGCAATGGGCAAATTGAGAGAGGATGCGAAGGGCCCAGCACAACCTGCCAAGAGGATTCATGTTCAAATCAAGGCGTTTGCTTGCAGCAATGGGATGGCTTCAGCTGTGACTGTAGCATGACTTCCTTCAGTGGCCCACTCTGCAATGACCCTGGGACAACATATATCTTTAGCAAAGGTGGTGGACAGATTACATATAAGTGGCCTCCCAATGACCGCCCCAGTACACGAGCAGACAGGCTGGCCATCGGATTTAGCACTGTCCAGAAGGAAGCCGTGTTGGTGCGTGTGGACAGTTCCTCAGGACTGGGTGACTACCTGGAGCTGCACATACACCAAGGAAAAATTGGAGTTAAGTTTAATGTTGGGACAGATGACATCGCCATCGAAGAGTCTAATGCAATCATTAATGATGGGAAATACCATGTAGTACGTTTCACAAGGAGTGGTGGCAATGCCACGTTACAGGTGGACAGCTGGCCAGTTATCGAACGCTACCCTGCAGGAAACAATGATAACGAGCGCCTGGCGATTGCTAGACAGCGAATTCCATATCGACTTGGTCGAGTAGTTGATGAATGGCTACTCGACAAAGGGCGTCAGCTCACAATCTTCAATAGCCAAGCAACCATAATAATTGGCGGGAAAGAGCAGGGCCAGCCCTTCCAGGGCCAGCTCTCTGGTCTTTACTACAATGGCTTGAAAGTTCTGAATATGGCAGCAGAGAACGATGCCAACATCGCCATAGTGGGGAATGTGAGGCTGGTCGGTGAAGTGCCTTCCTCTATGACAACTGAGTCGACAGCCACTGCCATGCAGTCTGAGATGTCCACCTCAATCATGGAGACCACCACAACCCTGGCTACCAGCACAGCTAGAAGAGGCAAGCCCCCCACAAAGGAACCCATCAGCCAGACCACAGATGACATCCTTGTGGCCTCGGCAGAGTGTCCCAGTGACGATGAGGACATTGACCCCTGTGAGCCGAGCTCAGGCAAAGGTCCTGAGACCCTTTTTGCTGGCTATAACCTCAATGATAATGAATGGCACACAGTGCGTGTGGTTCGGCGAGGAAAAAGTTTAAAGCTAACCGTGGATGATCAACAAGCCATGACAGGCCAAATGGCAGGTGATCATACAAGGCTGGAGTTTCATAACATAGAGACAGGCATCATCACCGAACGACGCTACCTTTCTTCTGTCCCCTCCAATTTCATTGGGCACCTGCAAAGCCTGACATTTAATGGAATGGCATACATAGACTTGTGCAAAAATGGTGATATAGATTACTGTGAACTCAATGCCAGGTTTGGATTCAGGAACATCATCGCAGATCCTGTCACCTTCAAGACCAAATCGAGCTATGTTGCCTTAGCTACATTGCAAGCCTACACCTCTATGCATCTATTTTTCCAATTCAAGACAACATCTCTAGATGGACTAATTCTGTATAACAGTGGGGATGGAAATGACTTTATTGTGGTTGAATTAGTTAAAGGGTACTTACATTATGTGTTTGACTTGGGAAACGGTGCTAACCTCATCAAAGGGAGCTCAAACAAACCACTCAACGACAATCAGTGGCACAATGTGATGATTTCACGGGACACCAGCAATCTCCACACAGTAAAGATCGACACAAAAATCACAACACAAATCACTGCGGGAGCCAGAAATCTAGACCTCAAGAGTGACTTGTATATTGGAGGAGTGGCTAAAGAAACATATAAATCCCTGCCAAAACTGGTCCATGCCAAAGAAGGCTTTCAAGGTTGCCTGGCATCTGTGGACTTGAATGGCAGACTTCCAGATCTCATCTCGGATGCTCTCTTCTGCAATGGGCAAATTGAGAGAGGATGCGAAGGGCCCAGCACAACCTGCCAAGAGGATTCATGTTCAAATCAAGGCGTTTGCTTGCAGCAATGGGATGGCTTCAGCTGTGACTGTAGCATGACTTCCTTCAGTGGCCCACTCTGCAATGACCCTGGGACAACATATATCTTTAGCAAAGGTGGTGGACAGATTACATATAAGTGGCCTCCCAATGACCGCCCCAGTACACGAGCAGACAGGCTGGCCATCGGATTTAGCACTGTCCAGAAGGAAGCCGTGTTGGTGCGTGTGGACAGTTCCTCAGGACTGGGTGACTACCTGGAGCTGCACATACACCAAGGAAAAATTGGAGTTAAGTTTAATGTTGGGACAGATGACATCGCCATCGAAGAGTCTAATGCAATCATTAATGATGGGAAATACCATGTAGTACGTTTCACAAGGAGTGGTGGCAATGCCACGTTACAGGTGGACAGCTGGCCAGTTATCGAACGCTACCCTGCAGGAAACAATGATAACGAGCGCCTGGCGATTGCTAGACAGCGAATTCCATATCGACTTGGTCGAGTAGTTGATGAATGGCTACTCGACAAAGGGCGTCAGCTCACAATCTTCAATAGCCAAGCAACCATAATAATTGGCGGGAAAGAGCAGGGCCAGCCCTTCCAGGGCCAGCTCTCTGGTCTTTACTACAATGGCTTGAAAGTTCTGAATATGGCAGCAGAGAACGATGCCAACATCGCCATAGTGGGGAATGTGAGGCTGGTCGGTGAAGTGCCTTCCTCTATGACAACTGAGTCGACAGCCACTGCCATGCAGTCTGAGATGTCCACCTCAATCATGGAGACCACCACAACCCTGGCTACCAGCACAGCTAGAAGAGGCAAGCCCCCCACAAAGGAACCCATCAGCCAGACCACAGATGACATCCTTGTGGCCTCGGCAGAGTGTCCCAGTGACGATGAGGACATTGACCCCTGTGAGCCGAGCTCA
Peptide sequence:
MTGQMAGDHTRLEFHNIETGIITERRYLSSVPSNFIGHLQSLTFNGMAYIDLCKNGDIDYCELNARFGFRNIIADPVTFKTKSSYVALATLQAYTSMHLFFQFKTTSLDGLILYNSGDGNDFIVVELVKGYLHYVFDLGNGANLIKGSSNKPLNDNQWHNVMISRDTSNLHTVKIDTKITTQITAGARNLDLKSDLYIGGVAKETYKSLPKLVHAKEGFQGCLASVDLNGRLPDLISDALFCNGQIERGCEGPSTTCQEDSCSNQGVCLQQWDGFSCDCSMTSFSGPLCNDPGTTYIFSKGGGQITYKWPPNDRPSTRADRLAIGFSTVQKEAVLVRVDSSSGLGDYLELHIHQGKIGVKFNVGTDDIAIEESNAIINDGKYHVVRFTRSGGNATLQVDSWPVIERYPAGNNDNERLAIARQRIPYRLGRVVDEWLLDKGRQLTIFNSQATIIIGGKEQGQPFQGQLSGLYYNGLKVLNMAAENDANIAIVGNVRLVGEVPSSMTTESTATAMQSEMSTSIMETTTTLATSTARRGKPPTKEPISQTTDDILVASAECPSDDEDIDPCEPSSGKGPETLFAGYNLNDNEWHTVRVVRRGKSLKLTVDDQQAMTGQMAGDHTRLEFHNIETGIITERRYLSSVPSNFIGHLQSLTFNGMAYIDLCKNGDIDYCELNARFGFRNIIADPVTFKTKSSYVALATLQAYTSMHLFFQFKTTSLDGLILYNSGDGNDFIVVELVKGYLHYVFDLGNGANLIKGSSNKPLNDNQWHNVMISRDTSNLHTVKIDTKITTQITAGARNLDLKSDLYIGGVAKETYKSLPKLVHAKEGFQGCLASVDLNGRLPDLISDALFCNGQIERGCEGPSTTCQEDSCSNQGVCLQQWDGFSCDCSMTSFSGPLCNDPGTTYIFSKGGGQITYKWPPNDRPSTRADRLAIGFSTVQKEAVLVRVDSSSGLGDYLELHIHQGKIGVKFNVGTDDIAIEESNAIINDGKYHVVRFTRSGGNATLQVDSWPVIERYPAGNNDNERLAIARQRIPYRLGRVVDEWLLDKGRQLTIFNSQATIIIGGKEQGQPFQGQLSGLYYNGLKVLNMAAENDANIAIVGNVRLVGEVPSSMTTESTATAMQSEMSTSIMETTTTLATSTARRGKPPTKEPISQTTDDILVASAECPSDDEDIDPCEPSS
IRESfinder result
IRESfinder score
0.380192388
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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