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mmu_circCspp1_2250
Basic information of circular RNA
PanCircBase ID:
mmu_circCspp1_2250
mm39_Chr. Position ID:
chr1|10134557|10183932|+
Gene name:
Cspp1
Transcript:
ENSMUST00000071087.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
17
Exon/intron indexes:
5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21
Exon/intron offsets:
0,990,2093,10527,12839,17920,19168,21414,23718,24549,25855,31533,39879,44036,48060,48543,49270
Genomic length:
49375
Exon/intron sizes in nt:
8,19,93,95,87,71,94,58,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:10129048-10134557|chr1:10183932-10186242
Splice length:
2250
Other database IDs:
circAtlas: mmu-Cspp1_0055
Human Ortholog IDs:
Mature spliced Sequence:
AAAAATTTCCTATCTACTGGTGAAACAGACCCATCTACTCTGGGAGTTTCTCTTCCCATTGATGAGCGGTTATCTGCCAAGGAAAGATTGAAACTTGAACGCAACCGAGAATACAATCAGTTTCTCAGGGGTAAGGCAGAATCCACAGAAAAAGTCAGACAGGTAGAAAAGAATATTGAGCCTAAGAGTCAAAGAAATAAAAACCCTATTAGTCAAGGTAAATCTGATCTACCTTTACAAATACAGACTGCATACACACATTCAGAGGGACCCTGGCTAAGCCGGCAAGAGGAGGGCCTGTACCGACAGCTAGATGGTGAAATTGAATTAAGGAGCAGAAGACCGCTTAAACAAACAAAGGAAGAAGTAGGCATTTCTGGTGCAGAACATCCAAGCCTTTCTGGCAGCGCTGGTGTCCCAGAGAGAAGAGCCCGCAGGGCTAACGGGGAGCGGGTGCTTGACAGACAACATTGCAGAGCCGACCGAGACCCTGGTGTGAGTGAAGACATGGACGAGAGGTTTAGATTTGAAAGTGATTTTGATAGAAGACTTTTGAGAGTGTATACAAATGGCAGGCCGCATGGGAGCAGACGAGGGTATGTGGATGGGGATGATGTCCCAGAAGAGCCAAACACACAGATCTCAGCTGCTGAAAATAAAAGTGTTCACTGTAATGGACCACCCAGATCTGCTGATCTCGATATCACAAGTCCATTTGCAGGCATGCTCTTTGGAGGTGAAGATCGAGAACTTACCAAGAGAAGGAAGGAGAAATATAGGCAAGAACTACTAGAACAGATAGCTGAGCAACAGAAGAAGAAGAGACGAGAAAAAGATTTAGCATTTGGAATTACAACTTCTGGAGTACAAGACCCTGAAAAATCGCCTGATAGACTAAAGCAGTTTAGTTTGACACCAAGACACTTTGAAGAGATGCCACCTGAGAGGCCCAGAGTAGCTTTCCAGACACCTCCCCCTCCCTTCTCTGCCCCGTCTAGCCCATCCGTCCCACCAGTTCATTCCGCCCCTTCTCACAATGAAGACTTGCACAGTGGACTCGGCAGCACCCTTGGTGAACTGGCGCATCCCAGGGTTCTGCCTGTGCCTCTGAATCCACCCCCGCCTCCGCTCCTTGCCCCTCCAGCTTCTAACTATCGAACTCCTTACGATGATGCGTACTATTTTTACGGTGCCAGAAATACACTGGATCCCAATATTGTATACTATGGTTCAGGAATGATTGGAGGACAGCCTGCCCCTCATGTCTCTGCCCCTGTCACTCACCAGGTAGCACCGCCAGCTGTGAATACTGTTGGACAGAATGAACAGAAAGTTCTTAGTGATGGACTCAGGAATTCAGGACTGGTCTTTGAGGATAAGCCAAAACCTTCTACACAGTCGCTTCAGTCTTACCAAGAAGCTTTGCAGGAGCAGATTCGGGAAAGAGAAGCAAGAAGGAAGAAAGAACGTTTAGAAAAAGAAGAATATGAAGCTAAATTAGAAGCCGAAATGAGGATCTACAACCCCTGGGGGAAGGGCGGAGGTGGTGCTCCTCTCAGAGACGCCAAAGGAAATCTGATAACTGATTTGAATAGGATGCACAGACAGAATATAGATGCCTACCATAACCCAGATGCAAGAACATATGAAGATAAAAGGGCTGTTGTATCTATAGACCAAAATTTAGCCACTTCAAATGCTGAGAACCTAGAAGATTCTGCAAATAAAAACTCAGGTCCTTTGCAAACACAAAGCTCTCCTTTTGCCCGGGGAAACACATTTGGTGAGCCACTCAGCGAGCTTCAGATTAAACAGCAAGAATTATACAAGAATTTTCTTCGTTTTCAGATTGAGGAAAAGAGACAAAGAGAAGAAGCCGAGCGCGAGAAGCTGAGAGTTGCTGAAGAGAAGGAAGAAAAGCGGCTTGCGGAGCAGAGGGCAAGGATTCAGCAAGAGTATGAGGAGGAGCAGGAGCGGAGGAGGGAGAAGGAGGAGGAGCAAAGGTTGAAAAATGAAGAACTTATTCGGTTAGCTGAAGAGAGGCGAAAGGAAGCGGAAAGAAAGAAGAAAGAGGAGGAAGAAAAACATAACTTGCAACTTCAGCATTACTATGAGAGAGAAAATATTATCGGAGATGAAACAAAGCACTTGAGACAGCCTTCTCCTGTAGTTCCTGCTCTTCAGAACAAAATTGCAAGCAAACTCCAAAGACCTCCTTCAGTCGACACCATCATAAGTTCCTTCATTCAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTTCTCCTGTAGTTCCTGC
60.41
CCTTGGCAGATAACCGCTCA
60.11
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAAGCAAACTCCAAAGACC
59.59
CCTTGGCAGATAACCGCTCA
60.11
140
PCR template sequence:
GAGACAGCCTTCTCCTGTAGTTCCTGCTCTTCAGAACAAAATTGCAAGCAAACTCCAAAGACCTCCTTCAGTCGACACCATCATAAGTTCCTTCATTCACAAAAATTTCCTATCTACTGGTGAAACAGACCCATCTACTCTGGGAGTTTCTCTTCCCATTGATGAGCGGTTATCTGCCAAGGAAAGATTGAAACTTGAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-155-5p(1), mmu-miR-29a-3p(1), mmu-miR-326-3p(1), mmu-miR-125b-5p(1), mmu-miR-351-5p(1), mmu-miR-127-5p(1), mmu-miR-483-5p(1), mmu-miR-499-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-5101(1), mmu-miR-1904(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCTTCATTCACAAAAATTTCCTAT
siRNA sets
TAGGAAATTTTTGTGAATG, ATTTTTGTGAATGAAGGAA, ATAGGAAATTTTTGTGAAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCSPP1_2250_ORF_1
1.1172
0.146878316
1
3993
ORF sequence:
ATGGACGAGAGGTTTAGATTTGAAAGTGATTTTGATAGAAGACTTTTGAGAGTGTATACAAATGGCAGGCCGCATGGGAGCAGACGAGGGTATGTGGATGGGGATGATGTCCCAGAAGAGCCAAACACACAGATCTCAGCTGCTGAAAATAAAAGTGTTCACTGTAATGGACCACCCAGATCTGCTGATCTCGATATCACAAGTCCATTTGCAGGCATGCTCTTTGGAGGTGAAGATCGAGAACTTACCAAGAGAAGGAAGGAGAAATATAGGCAAGAACTACTAGAACAGATAGCTGAGCAACAGAAGAAGAAGAGACGAGAAAAAGATTTAGCATTTGGAATTACAACTTCTGGAGTACAAGACCCTGAAAAATCGCCTGATAGACTAAAGCAGTTTAGTTTGACACCAAGACACTTTGAAGAGATGCCACCTGAGAGGCCCAGAGTAGCTTTCCAGACACCTCCCCCTCCCTTCTCTGCCCCGTCTAGCCCATCCGTCCCACCAGTTCATTCCGCCCCTTCTCACAATGAAGACTTGCACAGTGGACTCGGCAGCACCCTTGGTGAACTGGCGCATCCCAGGGTTCTGCCTGTGCCTCTGAATCCACCCCCGCCTCCGCTCCTTGCCCCTCCAGCTTCTAACTATCGAACTCCTTACGATGATGCGTACTATTTTTACGGTGCCAGAAATACACTGGATCCCAATATTGTATACTATGGTTCAGGAATGATTGGAGGACAGCCTGCCCCTCATGTCTCTGCCCCTGTCACTCACCAGGTAGCACCGCCAGCTGTGAATACTGTTGGACAGAATGAACAGAAAGTTCTTAGTGATGGACTCAGGAATTCAGGACTGGTCTTTGAGGATAAGCCAAAACCTTCTACACAGTCGCTTCAGTCTTACCAAGAAGCTTTGCAGGAGCAGATTCGGGAAAGAGAAGCAAGAAGGAAGAAAGAACGTTTAGAAAAAGAAGAATATGAAGCTAAATTAGAAGCCGAAATGAGGATCTACAACCCCTGGGGGAAGGGCGGAGGTGGTGCTCCTCTCAGAGACGCCAAAGGAAATCTGATAACTGATTTGAATAGGATGCACAGACAGAATATAGATGCCTACCATAACCCAGATGCAAGAACATATGAAGATAAAAGGGCTGTTGTATCTATAGACCAAAATTTAGCCACTTCAAATGCTGAGAACCTAGAAGATTCTGCAAATAAAAACTCAGGTCCTTTGCAAACACAAAGCTCTCCTTTTGCCCGGGGAAACACATTTGGTGAGCCACTCAGCGAGCTTCAGATTAAACAGCAAGAATTATACAAGAATTTTCTTCGTTTTCAGATTGAGGAAAAGAGACAAAGAGAAGAAGCCGAGCGCGAGAAGCTGAGAGTTGCTGAAGAGAAGGAAGAAAAGCGGCTTGCGGAGCAGAGGGCAAGGATTCAGCAAGAGTATGAGGAGGAGCAGGAGCGGAGGAGGGAGAAGGAGGAGGAGCAAAGGTTGAAAAATGAAGAACTTATTCGGTTAGCTGAAGAGAGGCGAAAGGAAGCGGAAAGAAAGAAGAAAGAGGAGGAAGAAAAACATAACTTGCAACTTCAGCATTACTATGAGAGAGAAAATATTATCGGAGATGAAACAAAGCACTTGAGACAGCCTTCTCCTGTAGTTCCTGCTCTTCAGAACAAAATTGCAAGCAAACTCCAAAGACCTCCTTCAGTCGACACCATCATAAGTTCCTTCATTCACAAAAATTTCCTATCTACTGGTGAAACAGACCCATCTACTCTGGGAGTTTCTCTTCCCATTGATGAGCGGTTATCTGCCAAGGAAAGATTGAAACTTGAACGCAACCGAGAATACAATCAGTTTCTCAGGGGTAAGGCAGAATCCACAGAAAAAGTCAGACAGGTAGAAAAGAATATTGAGCCTAAGAGTCAAAGAAATAAAAACCCTATTAGTCAAGGTAAATCTGATCTACCTTTACAAATACAGACTGCATACACACATTCAGAGGGACCCTGGCTAAGCCGGCAAGAGGAGGGCCTGTACCGACAGCTAGATGGTGAAATTGAATTAAGGAGCAGAAGACCGCTTAAACAAACAAAGGAAGAAGTAGGCATTTCTGGTGCAGAACATCCAAGCCTTTCTGGCAGCGCTGGTGTCCCAGAGAGAAGAGCCCGCAGGGCTAACGGGGAGCGGGTGCTTGACAGACAACATTGCAGAGCCGACCGAGACCCTGGTGTGAGTGAAGACATGGACGAGAGGTTTAGATTTGAAAGTGATTTTGATAGAAGACTTTTGAGAGTGTATACAAATGGCAGGCCGCATGGGAGCAGACGAGGGTATGTGGATGGGGATGATGTCCCAGAAGAGCCAAACACACAGATCTCAGCTGCTGAAAATAAAAGTGTTCACTGTAATGGACCACCCAGATCTGCTGATCTCGATATCACAAGTCCATTTGCAGGCATGCTCTTTGGAGGTGAAGATCGAGAACTTACCAAGAGAAGGAAGGAGAAATATAGGCAAGAACTACTAGAACAGATAGCTGAGCAACAGAAGAAGAAGAGACGAGAAAAAGATTTAGCATTTGGAATTACAACTTCTGGAGTACAAGACCCTGAAAAATCGCCTGATAGACTAAAGCAGTTTAGTTTGACACCAAGACACTTTGAAGAGATGCCACCTGAGAGGCCCAGAGTAGCTTTCCAGACACCTCCCCCTCCCTTCTCTGCCCCGTCTAGCCCATCCGTCCCACCAGTTCATTCCGCCCCTTCTCACAATGAAGACTTGCACAGTGGACTCGGCAGCACCCTTGGTGAACTGGCGCATCCCAGGGTTCTGCCTGTGCCTCTGAATCCACCCCCGCCTCCGCTCCTTGCCCCTCCAGCTTCTAACTATCGAACTCCTTACGATGATGCGTACTATTTTTACGGTGCCAGAAATACACTGGATCCCAATATTGTATACTATGGTTCAGGAATGATTGGAGGACAGCCTGCCCCTCATGTCTCTGCCCCTGTCACTCACCAGGTAGCACCGCCAGCTGTGAATACTGTTGGACAGAATGAACAGAAAGTTCTTAGTGATGGACTCAGGAATTCAGGACTGGTCTTTGAGGATAAGCCAAAACCTTCTACACAGTCGCTTCAGTCTTACCAAGAAGCTTTGCAGGAGCAGATTCGGGAAAGAGAAGCAAGAAGGAAGAAAGAACGTTTAGAAAAAGAAGAATATGAAGCTAAATTAGAAGCCGAAATGAGGATCTACAACCCCTGGGGGAAGGGCGGAGGTGGTGCTCCTCTCAGAGACGCCAAAGGAAATCTGATAACTGATTTGAATAGGATGCACAGACAGAATATAGATGCCTACCATAACCCAGATGCAAGAACATATGAAGATAAAAGGGCTGTTGTATCTATAGACCAAAATTTAGCCACTTCAAATGCTGAGAACCTAGAAGATTCTGCAAATAAAAACTCAGGTCCTTTGCAAACACAAAGCTCTCCTTTTGCCCGGGGAAACACATTTGGTGAGCCACTCAGCGAGCTTCAGATTAAACAGCAAGAATTATACAAGAATTTTCTTCGTTTTCAGATTGAGGAAAAGAGACAAAGAGAAGAAGCCGAGCGCGAGAAGCTGAGAGTTGCTGAAGAGAAGGAAGAAAAGCGGCTTGCGGAGCAGAGGGCAAGGATTCAGCAAGAGTATGAGGAGGAGCAGGAGCGGAGGAGGGAGAAGGAGGAGGAGCAAAGGTTGAAAAATGAAGAACTTATTCGGTTAGCTGAAGAGAGGCGAAAGGAAGCGGAAAGAAAGAAGAAAGAGGAGGAAGAAAAACATAACTTGCAACTTCAGCATTACTATGAGAGAGAAAATATTATCGGAGATGAAACAAAGCACTTGAGACAGCCTTCTCCTGTAGTTCCTGCTCTTCAGAACAAAATTGCAAGCAAACTCCAAAGACCTCCTTCAGTCGACACCATCATAAGTTCCTTCATTCAC
Peptide sequence:
MDERFRFESDFDRRLLRVYTNGRPHGSRRGYVDGDDVPEEPNTQISAAENKSVHCNGPPRSADLDITSPFAGMLFGGEDRELTKRRKEKYRQELLEQIAEQQKKKRREKDLAFGITTSGVQDPEKSPDRLKQFSLTPRHFEEMPPERPRVAFQTPPPPFSAPSSPSVPPVHSAPSHNEDLHSGLGSTLGELAHPRVLPVPLNPPPPPLLAPPASNYRTPYDDAYYFYGARNTLDPNIVYYGSGMIGGQPAPHVSAPVTHQVAPPAVNTVGQNEQKVLSDGLRNSGLVFEDKPKPSTQSLQSYQEALQEQIREREARRKKERLEKEEYEAKLEAEMRIYNPWGKGGGGAPLRDAKGNLITDLNRMHRQNIDAYHNPDARTYEDKRAVVSIDQNLATSNAENLEDSANKNSGPLQTQSSPFARGNTFGEPLSELQIKQQELYKNFLRFQIEEKRQREEAEREKLRVAEEKEEKRLAEQRARIQQEYEEEQERRREKEEEQRLKNEELIRLAEERRKEAERKKKEEEEKHNLQLQHYYERENIIGDETKHLRQPSPVVPALQNKIASKLQRPPSVDTIISSFIHKNFLSTGETDPSTLGVSLPIDERLSAKERLKLERNREYNQFLRGKAESTEKVRQVEKNIEPKSQRNKNPISQGKSDLPLQIQTAYTHSEGPWLSRQEEGLYRQLDGEIELRSRRPLKQTKEEVGISGAEHPSLSGSAGVPERRARRANGERVLDRQHCRADRDPGVSEDMDERFRFESDFDRRLLRVYTNGRPHGSRRGYVDGDDVPEEPNTQISAAENKSVHCNGPPRSADLDITSPFAGMLFGGEDRELTKRRKEKYRQELLEQIAEQQKKKRREKDLAFGITTSGVQDPEKSPDRLKQFSLTPRHFEEMPPERPRVAFQTPPPPFSAPSSPSVPPVHSAPSHNEDLHSGLGSTLGELAHPRVLPVPLNPPPPPLLAPPASNYRTPYDDAYYFYGARNTLDPNIVYYGSGMIGGQPAPHVSAPVTHQVAPPAVNTVGQNEQKVLSDGLRNSGLVFEDKPKPSTQSLQSYQEALQEQIREREARRKKERLEKEEYEAKLEAEMRIYNPWGKGGGGAPLRDAKGNLITDLNRMHRQNIDAYHNPDARTYEDKRAVVSIDQNLATSNAENLEDSANKNSGPLQTQSSPFARGNTFGEPLSELQIKQQELYKNFLRFQIEEKRQREEAEREKLRVAEEKEEKRLAEQRARIQQEYEEEQERRREKEEEQRLKNEELIRLAEERRKEAERKKKEEEEKHNLQLQHYYERENIIGDETKHLRQPSPVVPALQNKIASKLQRPPSVDTIISSFIH
IRESfinder result
IRESfinder score
0.517600585
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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