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mmu_circSpg7_1592
Basic information of circular RNA
PanCircBase ID:
mmu_circSpg7_1592
mm39_Chr. Position ID:
chr8|123793211|123818489|+
Gene name:
Spg7
Transcript:
ENSMUST00000125975.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,3907,7276,10378,11345,12941,13496,14164,20855,22472,23651,25162
Genomic length:
25278
Exon/intron sizes in nt:
10,38,62,42,14,01,03,10,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr8:123789773-123793211|chr8:123818489-123820329
Splice length:
1592
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGTTTGCTATTGCGAATACTGACCCCTAGCTTTGAAGGTATTAGCGGATTGTTACTGAAACAGCATATAGTTCCAAATGCAGTCAGACTGTGGCCGCTTTCAGCACTTTGTATTTTAACACCTCAAGGATGAAGCAGAAGAATAAAGACAATGATAAACCCAAAGGCAAGACCCCTGAAGATGATGAAGAAGAGAAGAGACGAAAAGAGCGGGAAGACCAGATGTACCGAGAGAGGCTGCGCACCCTGTTCATCATTGCTCTTGTCATGAGCCTGCTGAACTCCCTCAGTACAAGTGGGGGCAGTATTTCCTGGGCTGACTTTGTCAACGAGATGCTGGCTAAAGGCGAGGTGCAGCGTGTGCAGGTGGTGCCCGAGAGTGATGTGGTGGAAGTCTATCTGCATCCTGGAGCTGTGGTGTTTGGGCGGCCTCGGCTGGCCCTGATGTATCGGATGCAGGTTGCAAACATCGACAAATTTGAAGAGAAGCTTCGAGCAGCCGAAGATGAACTGAACATTGAGAGCAAGGACAGGATTCCCGTGTCCTACAAGCGGACAGGATTCTTTGGGAATGCCCTCTACGCCCTGGGGATGACAGCCGTGGGCTTGGCCATCCTGTGGTATGTTTTCAGACTGGCGGGGATGACCGGAAGGGAAGGCGGATTCAGTGCTTTTAATCAGCTTAAGATGGCACGTTTCACCATTGTGGACGGGAAGACAGGGAAAGGAGTCAGCTTCCAAGATGTGGCAGGAATGCATGAAGCCAAGCTGGAAGTCCGAGAATTTGTGGATTATCTGAAGAGCCCAGAGCGTTTCCTTCAGCTCGGTGCCAAGGTTCCAAAGGGTGCCCTGTTGCTGGGGCCCCCTGGCTGTGGGAAGACGCTGTTGGCCAAGGCAGTAGCCACGGAGGCTCAGGTGCCCTTTTTAGCAATGGCTGGCCCAGAGTTTGTGGAGGTGATTGGAGGCCTGGGAGCTGCCCGAGTGCGAAGCCTCTTCAAGGAGGCACGAGCCAGGGCCCCTTGCATAGTGTACATTGATGAGATCGATGCTGTGGGAAAGAAGCGCTCCACCTCCATGTCTGGGTTCTCCAACACGGAAGAGGAGCAGACCCTCAACCAGCTCCTGGTGGAGATGGACGGAATGGGCACCACAGACCATGTCATCGTCTTGGCATCCACCAATCGAGCTGATGTTCTGGACAATGCTCTGATGAGGCCTGGGCGGCTCGACAGGCATGTCTTCATTGATCTTCCCACGCTCCAGGAGAGGCGGGAGATTTTCGAGCAGCACCTGAAAGGCCTGAAGTTGACCCAGCCCAGCAGTTTTTACTCCCAGCGGCTGGCAGAGCTGACACCTGGATTCAGTGGCGCCGACATCGCCAACATCTGCAACGAGGCCGCTCTGCACGCTGCACGCGAGGGGCACACGTCCGTGCACACGTTCAACTTTGAGTATGCCGTGGAGCGCGTCATTGCTGGTACTGCTAAAAAGAGTAAGATCCTCTCCAAGGAGGAGCAGAGAGTGGTCGCCTTCCATGAGTCTGGCCATGCCTTGGTTGGTTGGCTGCTGGAGCACACAGAGGCTGTGATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCATGAGTCTGGCCATGC
60.39
AAAGCGGCCACAGTCTGAC
60.6
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCGCCTTCCATGAGTCTGG
60.46
AAAGCGGCCACAGTCTGAC
60.6
169
PCR template sequence:
TAAGATCCTCTCCAAGGAGGAGCAGAGAGTGGTCGCCTTCCATGAGTCTGGCCATGCCTTGGTTGGTTGGCTGCTGGAGCACACAGAGGCTGTGATGAAGAGTTTGCTATTGCGAATACTGACCCCTAGCTTTGAAGGTATTAGCGGATTGTTACTGAAACAGCATATAGTTCCAAATGCAGTCAGACTGTGGCCGCTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(2), mmu-miR-188-3p(2), mmu-miR-1904(2), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-106b-5p(1), mmu-miR-335-5p(1), mmu-miR-217-5p(1), mmu-miR-339-5p(1), mmu-miR-214-3p(1), mmu-miR-149-5p(1), mmu-miR-494-3p(1), mmu-miR-130b-3p(1), mmu-miR-802-5p(1), mmu-miR-1187(1), mmu-miR-300-3p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTGTGATGAAGAGTTTGCTATTGC
siRNA sets
ATAGCAAACTCTTCATCAC, AATAGCAAACTCTTCATCA, CAAACTCTTCATCACAGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPG7_1592_ORF_1
1.1829
0.409993381
0.999957916
1596
ORF sequence:
ATGAAGCAGAAGAATAAAGACAATGATAAACCCAAAGGCAAGACCCCTGAAGATGATGAAGAAGAGAAGAGACGAAAAGAGCGGGAAGACCAGATGTACCGAGAGAGGCTGCGCACCCTGTTCATCATTGCTCTTGTCATGAGCCTGCTGAACTCCCTCAGTACAAGTGGGGGCAGTATTTCCTGGGCTGACTTTGTCAACGAGATGCTGGCTAAAGGCGAGGTGCAGCGTGTGCAGGTGGTGCCCGAGAGTGATGTGGTGGAAGTCTATCTGCATCCTGGAGCTGTGGTGTTTGGGCGGCCTCGGCTGGCCCTGATGTATCGGATGCAGGTTGCAAACATCGACAAATTTGAAGAGAAGCTTCGAGCAGCCGAAGATGAACTGAACATTGAGAGCAAGGACAGGATTCCCGTGTCCTACAAGCGGACAGGATTCTTTGGGAATGCCCTCTACGCCCTGGGGATGACAGCCGTGGGCTTGGCCATCCTGTGGTATGTTTTCAGACTGGCGGGGATGACCGGAAGGGAAGGCGGATTCAGTGCTTTTAATCAGCTTAAGATGGCACGTTTCACCATTGTGGACGGGAAGACAGGGAAAGGAGTCAGCTTCCAAGATGTGGCAGGAATGCATGAAGCCAAGCTGGAAGTCCGAGAATTTGTGGATTATCTGAAGAGCCCAGAGCGTTTCCTTCAGCTCGGTGCCAAGGTTCCAAAGGGTGCCCTGTTGCTGGGGCCCCCTGGCTGTGGGAAGACGCTGTTGGCCAAGGCAGTAGCCACGGAGGCTCAGGTGCCCTTTTTAGCAATGGCTGGCCCAGAGTTTGTGGAGGTGATTGGAGGCCTGGGAGCTGCCCGAGTGCGAAGCCTCTTCAAGGAGGCACGAGCCAGGGCCCCTTGCATAGTGTACATTGATGAGATCGATGCTGTGGGAAAGAAGCGCTCCACCTCCATGTCTGGGTTCTCCAACACGGAAGAGGAGCAGACCCTCAACCAGCTCCTGGTGGAGATGGACGGAATGGGCACCACAGACCATGTCATCGTCTTGGCATCCACCAATCGAGCTGATGTTCTGGACAATGCTCTGATGAGGCCTGGGCGGCTCGACAGGCATGTCTTCATTGATCTTCCCACGCTCCAGGAGAGGCGGGAGATTTTCGAGCAGCACCTGAAAGGCCTGAAGTTGACCCAGCCCAGCAGTTTTTACTCCCAGCGGCTGGCAGAGCTGACACCTGGATTCAGTGGCGCCGACATCGCCAACATCTGCAACGAGGCCGCTCTGCACGCTGCACGCGAGGGGCACACGTCCGTGCACACGTTCAACTTTGAGTATGCCGTGGAGCGCGTCATTGCTGGTACTGCTAAAAAGAGTAAGATCCTCTCCAAGGAGGAGCAGAGAGTGGTCGCCTTCCATGAGTCTGGCCATGCCTTGGTTGGTTGGCTGCTGGAGCACACAGAGGCTGTGATGAAGAGTTTGCTATTGCGAATACTGACCCCTAGCTTTGAAGGTATTAGCGGATTGTTACTGAAACAGCATATAGTTCCAAATGCAGTCAGACTGTGGCCGCTTTCAGCACTTTGTATTTTAACACCTCAAGGATGA
Peptide sequence:
MKQKNKDNDKPKGKTPEDDEEEKRRKEREDQMYRERLRTLFIIALVMSLLNSLSTSGGSISWADFVNEMLAKGEVQRVQVVPESDVVEVYLHPGAVVFGRPRLALMYRMQVANIDKFEEKLRAAEDELNIESKDRIPVSYKRTGFFGNALYALGMTAVGLAILWYVFRLAGMTGREGGFSAFNQLKMARFTIVDGKTGKGVSFQDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGPEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTSMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADVLDNALMRPGRLDRHVFIDLPTLQERREIFEQHLKGLKLTQPSSFYSQRLAELTPGFSGADIANICNEAALHAAREGHTSVHTFNFEYAVERVIAGTAKKSKILSKEEQRVVAFHESGHALVGWLLEHTEAVMKSLLLRILTPSFEGISGLLLKQHIVPNAVRLWPLSALCILTPQG
IRESfinder result
IRESfinder score
0.326254747
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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