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mmu_circPtprn2_2077
Basic information of circular RNA
PanCircBase ID:
mmu_circPtprn2_2077
mm39_Chr. Position ID:
chr12|116804863|117196981|+
Gene name:
Ptprn2
Transcript:
ENSMUST00000190247.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
5,6,7,8,9,10,11,12,13,14,15,16,17
Exon/intron offsets:
0,17599,30692,32407,34746,47595,59724,181560,320350,343337,370612,385903,392040
Genomic length:
392118
Exon/intron sizes in nt:
163,349,201,41,383,87,80,65,213,195,148,74,78
Flanking exon/introns:
chr12:116788039-116804863|chr12:117196981-117211276
Splice length:
2077
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCCTTACAACAGAATGCTGACAATGAAAAATGGTTCAGTCTGGAGAGGGAGGTGGCCCTGGCCAAGACCCTTCGGCGCTATCTGCCCTACCTGGAGCTTCTGTCCCAGACCCCAACAGCAAATGCACACTCTAGGATAGACCATGAGACTCGTCCAGCCAAGGGTGAAGACTCTTCCCCTGAGAACATCCTGACCTACGTGGCCCACACATCAGCACTGACCTATCCTCCTGCAACCCGGGCCAAGTATCCTGATAACCTTCTGCGGCCCTTTAGCCGGCTCCAGCCAGATGAGCTCAGCCCCAAGGTAGACGGTGACATAGACAAACAGAAGCTGATTGCAGCACTGGGCGCCTACACTGCTCAGAGGCTTCCTGGAGAAAATGACCCAGAGCCACGGTACCTTGTACATGGTTCCGCGAGAGCACCAAGGCCATTCTCAGCAACTGCTTTGTCTCAGAGATGGCCTCCACCTCCTGGAGACGCCAAAGACTCCCCGAGTATGGATGATGACACACTCCTGCAGAGTCTCCTGAAGGATTTGCAGCAGAACTCTGAAGTGGACCGCCTGGGCCCCCTGAAGGAGGAGAAAGCAGACTCAGTTGCTGGAGCCATACAAAGTGATCCTGCAGAGGGAAGCCAAGAAAGCCACGGGAGAGGGGCTGAAGGACAGCCAAGAGAGCAGACAGATGCCCCAGAGACAATGCTTCAAGATCACAGACTATCAGAGGTGGATGACCCAGTGTACAAGGAGGTCAACCGTCTGAGCTTCCAGCTTGGGGACCTCTTGAAGGACTATGGGTCTCCTCTCTTACCTGAAGGTCCCCTTCTAGAAAAATCCTCCAGAGAAGAGATTAAGAAATCAGAGCAGCCAGAGGAGGTCTTGTCTTCAGAAGAGGAGACTGCTGGGGTGGAGCATGTGAGGAGCCGGACTTACTCCAAAGACCTATTTGAAAGGAAACCAAACTCAGAGCCCCAGCCCAGGAGGCTTGAGGATCAGTTCCAAAACCGAGCTCCAGAGTTGTGGGAGGATGAAGAAAGCCTCAAATTGGCAGCACAGGGACCCCCTAGTGGAGGCCTACAGCTGGAAGTGCAGCCTTCTGAGGAACAGCAGGGATACATCCTCACAGGAAACAACCCTCTAAGTCCAGAGAAGGGGAAGCAGCTGATGGACCAAGTTGCCCACATCCTCCGGGTACCTTCCAGCTTCTTTGCAGATATCAAAGTTTTGGGACCAGCAGTGACCTTCAAAGTAAGTGCCAACATCCAAAACATGACAACTGCCGATGTCATCAAGGCTGCAGCTGACAACAAAGACCAGCTGGAGAAGGCAACTGGACTGACAATCCTTCAAAGTGGAATCAGGCCGAAGGGAAAGCTCAAACTCCTGCCGCATCAGGAAGAGCAAGAGGACTCTACCAAGTTCATTTTGCTCACCTTCCTCTCCATTGCCTGCATCCTGGGGGTTCTCCTGGCTTCCAGCCTTGCCTACTGCCTCCGCCACAACTCACACTACAAGCTGAAGGACAAGTTGTCTGGACTAGGCGCTGACCCCAGTGCAGATGCCACTGAAGCCTACCAGGAGCTATGCCGCCAGCGTATGGCTATTCGTCCACAGGACCGCTCTGAGGGACCACATACATCACGCATCAACAGCGTCTCATCCCAGTTCAGCGATGGGCCGATGCCTAGTCCTTCGGCTCGGAGCAGCACTTCATCCTGGTCTGAGGAGCCTGTCCAGTCCAACATGGACATCTCTACTGGCCACATGATCCTGGCCTACATGGAAGACCATCTGAAGAACAAGAACCGCCTGGAGAAGGAGTGGGAAGCACTGTGCGCCTACCAAGCAGAGCCCAACAGCTCACTTGTGGCCCAGAGAGAGGAGAATGCACCCAAGAACCGTTCCCTGGCTGTGCTGACCTATGACCACTCCAGGATCCTGTTGAAGTCTCAAAACAGCCATGGCAGTTCCGACTACATCAATGCCAGCCCCATTATGGACCATGACCCACGAAACCCCGCATACATTGCCACCCAAGGCCCACTTCCCGCCACGGTGGCCGACTTCTGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTACATCAATGCCAGCCCCA
60.11
CACCTCCCTCTCCAGACTGA
59.96
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCCAGCCCCATTATGGAC
60.18
CACCTCCCTCTCCAGACTGA
59.96
147
PCR template sequence:
CTACATCAATGCCAGCCCCATTATGGACCATGACCCACGAAACCCCGCATACATTGCCACCCAAGGCCCACTTCCCGCCACGGTGGCCGACTTCTGGCAGGTCCTTACAACAGAATGCTGACAATGAAAAATGGTTCAGTCTGGAGAGGGAGGTGGCCCTGGCCAAGACCCTTCGGCGCTATCTGCCCTACCTGGAGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(2), mmu-miR-680(2), mmu-miR-1187(2), mmu-let-7b-5p(1), mmu-miR-122-5p(1), mmu-miR-709(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-452-3p(1), mmu-miR-3061-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CGACTTCTGGCAGGTCCTTACAACAG
siRNA sets
GTTGTAAGGACCTGCCAGA, CTGTTGTAAGGACCTGCCA, TTGTAAGGACCTGCCAGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTPRN2_2077_ORF_1
0.9384
0.339984689
0.999998758
2190
ORF sequence:
ATGGCAGTTCCGACTACATCAATGCCAGCCCCATTATGGACCATGACCCACGAAACCCCGCATACATTGCCACCCAAGGCCCACTTCCCGCCACGGTGGCCGACTTCTGGCAGGTCCTTACAACAGAATGCTGACAATGAAAAATGGTTCAGTCTGGAGAGGGAGGTGGCCCTGGCCAAGACCCTTCGGCGCTATCTGCCCTACCTGGAGCTTCTGTCCCAGACCCCAACAGCAAATGCACACTCTAGGATAGACCATGAGACTCGTCCAGCCAAGGGTGAAGACTCTTCCCCTGAGAACATCCTGACCTACGTGGCCCACACATCAGCACTGACCTATCCTCCTGCAACCCGGGCCAAGTATCCTGATAACCTTCTGCGGCCCTTTAGCCGGCTCCAGCCAGATGAGCTCAGCCCCAAGGTAGACGGTGACATAGACAAACAGAAGCTGATTGCAGCACTGGGCGCCTACACTGCTCAGAGGCTTCCTGGAGAAAATGACCCAGAGCCACGGTACCTTGTACATGGTTCCGCGAGAGCACCAAGGCCATTCTCAGCAACTGCTTTGTCTCAGAGATGGCCTCCACCTCCTGGAGACGCCAAAGACTCCCCGAGTATGGATGATGACACACTCCTGCAGAGTCTCCTGAAGGATTTGCAGCAGAACTCTGAAGTGGACCGCCTGGGCCCCCTGAAGGAGGAGAAAGCAGACTCAGTTGCTGGAGCCATACAAAGTGATCCTGCAGAGGGAAGCCAAGAAAGCCACGGGAGAGGGGCTGAAGGACAGCCAAGAGAGCAGACAGATGCCCCAGAGACAATGCTTCAAGATCACAGACTATCAGAGGTGGATGACCCAGTGTACAAGGAGGTCAACCGTCTGAGCTTCCAGCTTGGGGACCTCTTGAAGGACTATGGGTCTCCTCTCTTACCTGAAGGTCCCCTTCTAGAAAAATCCTCCAGAGAAGAGATTAAGAAATCAGAGCAGCCAGAGGAGGTCTTGTCTTCAGAAGAGGAGACTGCTGGGGTGGAGCATGTGAGGAGCCGGACTTACTCCAAAGACCTATTTGAAAGGAAACCAAACTCAGAGCCCCAGCCCAGGAGGCTTGAGGATCAGTTCCAAAACCGAGCTCCAGAGTTGTGGGAGGATGAAGAAAGCCTCAAATTGGCAGCACAGGGACCCCCTAGTGGAGGCCTACAGCTGGAAGTGCAGCCTTCTGAGGAACAGCAGGGATACATCCTCACAGGAAACAACCCTCTAAGTCCAGAGAAGGGGAAGCAGCTGATGGACCAAGTTGCCCACATCCTCCGGGTACCTTCCAGCTTCTTTGCAGATATCAAAGTTTTGGGACCAGCAGTGACCTTCAAAGTAAGTGCCAACATCCAAAACATGACAACTGCCGATGTCATCAAGGCTGCAGCTGACAACAAAGACCAGCTGGAGAAGGCAACTGGACTGACAATCCTTCAAAGTGGAATCAGGCCGAAGGGAAAGCTCAAACTCCTGCCGCATCAGGAAGAGCAAGAGGACTCTACCAAGTTCATTTTGCTCACCTTCCTCTCCATTGCCTGCATCCTGGGGGTTCTCCTGGCTTCCAGCCTTGCCTACTGCCTCCGCCACAACTCACACTACAAGCTGAAGGACAAGTTGTCTGGACTAGGCGCTGACCCCAGTGCAGATGCCACTGAAGCCTACCAGGAGCTATGCCGCCAGCGTATGGCTATTCGTCCACAGGACCGCTCTGAGGGACCACATACATCACGCATCAACAGCGTCTCATCCCAGTTCAGCGATGGGCCGATGCCTAGTCCTTCGGCTCGGAGCAGCACTTCATCCTGGTCTGAGGAGCCTGTCCAGTCCAACATGGACATCTCTACTGGCCACATGATCCTGGCCTACATGGAAGACCATCTGAAGAACAAGAACCGCCTGGAGAAGGAGTGGGAAGCACTGTGCGCCTACCAAGCAGAGCCCAACAGCTCACTTGTGGCCCAGAGAGAGGAGAATGCACCCAAGAACCGTTCCCTGGCTGTGCTGACCTATGACCACTCCAGGATCCTGTTGAAGTCTCAAAACAGCCATGGCAGTTCCGACTACATCAATGCCAGCCCCATTATGGACCATGACCCACGAAACCCCGCATACATTGCCACCCAAGGCCCACTTCCCGCCACGGTGGCCGACTTCTGGCAG
Peptide sequence:
MAVPTTSMPAPLWTMTHETPHTLPPKAHFPPRWPTSGRSLQQNADNEKWFSLEREVALAKTLRRYLPYLELLSQTPTANAHSRIDHETRPAKGEDSSPENILTYVAHTSALTYPPATRAKYPDNLLRPFSRLQPDELSPKVDGDIDKQKLIAALGAYTAQRLPGENDPEPRYLVHGSARAPRPFSATALSQRWPPPPGDAKDSPSMDDDTLLQSLLKDLQQNSEVDRLGPLKEEKADSVAGAIQSDPAEGSQESHGRGAEGQPREQTDAPETMLQDHRLSEVDDPVYKEVNRLSFQLGDLLKDYGSPLLPEGPLLEKSSREEIKKSEQPEEVLSSEEETAGVEHVRSRTYSKDLFERKPNSEPQPRRLEDQFQNRAPELWEDEESLKLAAQGPPSGGLQLEVQPSEEQQGYILTGNNPLSPEKGKQLMDQVAHILRVPSSFFADIKVLGPAVTFKVSANIQNMTTADVIKAAADNKDQLEKATGLTILQSGIRPKGKLKLLPHQEEQEDSTKFILLTFLSIACILGVLLASSLAYCLRHNSHYKLKDKLSGLGADPSADATEAYQELCRQRMAIRPQDRSEGPHTSRINSVSSQFSDGPMPSPSARSSTSSWSEEPVQSNMDISTGHMILAYMEDHLKNKNRLEKEWEALCAYQAEPNSSLVAQREENAPKNRSLAVLTYDHSRILLKSQNSHGSSDYINASPIMDHDPRNPAYIATQGPLPATVADFWQ
IRESfinder result
IRESfinder score
0.385925607
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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