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mmu_circAldh18a1_1334
Basic information of circular RNA
PanCircBase ID:
mmu_circAldh18a1_1334
mm39_Chr. Position ID:
chr19|40555015|40574636|-
Gene name:
Aldh18a1
Transcript:
ENSMUST00000176939.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1750,2461,3896,7199,7645,11006,11200,13290,18918,19555
Genomic length:
19621
Exon/intron sizes in nt:
94,74,145,125,91,153,105,150,215,116,66
Flanking exon/introns:
chr19:40553500-40555015|chr19:40574636-40576753
Splice length:
1334
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACTCCTGAGCACTAACACATACACACAAGGATTTGGACAATAGCCACCAGTCTTAGCAGAACAGGTGTTTGGATTTGTGACAACATCTCAACATGCTGAGACACATGCACCGCTCTGGGGTCCAGCCCTTCAGGCAACGTCTTCTACCATGGGTCCAGTCCATAGCTGTGCCCAGATCAAATCGTGTCCAGCCCTCAGCTATTAGACATGTTCGTTCTTGGAGCAACATCCCCTTTATCACGGTACCCCTCAGTCGTGCCCACGGCAAGCCCTTTGCCCACCGAAGTGAGCTGAAGCACGCCAAGAGAATTGTAGTGAAACTCGGCAGTGCCGTGGTGACCAGAGGAGATGAGTGTGGCCTGGCACTGGGACGCCTGGCATCTATTGTTGAACAGGTCTCGGTGCTGCAGAATCAGGGCCGAGAGATGATGCTGGTGACCAGTGGAGCCGTCGCCTTCGGCAAACAGCGCCTGCGCCATGAGATCCTTCTGTCTCAGAGCGTGCGGCAAGCCCTGCACTCAGGACAGAACCATCTGAAGGAGATGGCAATTCCGGTCTTAGAGGCCCGAGCCTGTGCAGCTGCTGGACAGAGTGGACTGATGGCCTTGTACGAGGCCATGTTTACACAGTACAGCATCTGTGCTGCCCAGATCTTGGTGACCAACCTGGATTTCCACGACGAGCAGAAGCGCAGAAATCTCAACGGTACCCTCCACGAGCTGCTCCGCATGAACATCGTCCCCATCGTCAACACAAACGATGCCGTCGTCCCTCCAGCCGAGCCCAACAGTGATCTTCAGGGGGTGATTAGTGTTAAGGATAATGATAGCCTGGCTGCCCGGCTGGCCGTGGAGATGAAAACCGACCTCTTGATTGTCCTCTCGGACGTAGAAGGCCTCTTTGACAGCCCCCCAGGCTCAGATGATGCAAAGCTCATTGATATATTCTATCCGGGAGATCAGCAGTCTGTGACATTTGGAACCAAGTCTAGAGTGGGCCTAGGGGGCATGGAAGCCAAGGTGAAAGCCGCCCTCTGGGCTTTGCAAGGCGGGACTTCTGTCGTCATTGCCAACGGGACCCACCCAAAGGTGTCTGGGCACGTCATCACAGACATCGTGGAGGGAAAGAAAGTTGGCACCTTCTTTTCAGAAGTGAAGCCTGCTGGTCCTACAGTGGAGCAGCAGGGGGAGATGGCTCGATCTGGTGGGAGAATGCTGGCTACCTTAGAGCCTGAACAGAGAGCTGAAATTATCAATCATCTGGCTGACCTGCTGACGGACCAGCGGGAAGAGATCCTGTTAGCCAACAAAAAAGATTTGGAGGAGGCAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCATCTGGCTGACCTGCTG
59.82
GTTCTGCTAAGACTGGTGGCT
60
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCATCTGGCTGACCTGCTG
59.82
TGTTCTGCTAAGACTGGTGGC
60.27
143
PCR template sequence:
GAACAGAGAGCTGAAATTATCAATCATCTGGCTGACCTGCTGACGGACCAGCGGGAAGAGATCCTGTTAGCCAACAAAAAAGATTTGGAGGAGGCAGAGGGTACTCCTGAGCACTAACACATACACACAAGGATTTGGACAATAGCCACCAGTCTTAGCAGAACAGGTGTTTGGATTTGTGACAACATCTCAACATGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30d-5p(1), mmu-miR-214-3p(1), mmu-miR-351-5p(1), mmu-miR-182-5p(1), mmu-miR-297a-5p(1), mmu-miR-499-5p(1), mmu-miR-1187(1), mmu-miR-5101(1), mmu-miR-669d-5p(1), mmu-miR-484(1), mmu-miR-3470b(1), mmu-miR-350-3p(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGAGGCAGAGGGTACTCCTGAGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALDH18A1_1334_ORF_1
1.2266
0.397418845
0.999534244
1257
ORF sequence:
ATGCTGAGACACATGCACCGCTCTGGGGTCCAGCCCTTCAGGCAACGTCTTCTACCATGGGTCCAGTCCATAGCTGTGCCCAGATCAAATCGTGTCCAGCCCTCAGCTATTAGACATGTTCGTTCTTGGAGCAACATCCCCTTTATCACGGTACCCCTCAGTCGTGCCCACGGCAAGCCCTTTGCCCACCGAAGTGAGCTGAAGCACGCCAAGAGAATTGTAGTGAAACTCGGCAGTGCCGTGGTGACCAGAGGAGATGAGTGTGGCCTGGCACTGGGACGCCTGGCATCTATTGTTGAACAGGTCTCGGTGCTGCAGAATCAGGGCCGAGAGATGATGCTGGTGACCAGTGGAGCCGTCGCCTTCGGCAAACAGCGCCTGCGCCATGAGATCCTTCTGTCTCAGAGCGTGCGGCAAGCCCTGCACTCAGGACAGAACCATCTGAAGGAGATGGCAATTCCGGTCTTAGAGGCCCGAGCCTGTGCAGCTGCTGGACAGAGTGGACTGATGGCCTTGTACGAGGCCATGTTTACACAGTACAGCATCTGTGCTGCCCAGATCTTGGTGACCAACCTGGATTTCCACGACGAGCAGAAGCGCAGAAATCTCAACGGTACCCTCCACGAGCTGCTCCGCATGAACATCGTCCCCATCGTCAACACAAACGATGCCGTCGTCCCTCCAGCCGAGCCCAACAGTGATCTTCAGGGGGTGATTAGTGTTAAGGATAATGATAGCCTGGCTGCCCGGCTGGCCGTGGAGATGAAAACCGACCTCTTGATTGTCCTCTCGGACGTAGAAGGCCTCTTTGACAGCCCCCCAGGCTCAGATGATGCAAAGCTCATTGATATATTCTATCCGGGAGATCAGCAGTCTGTGACATTTGGAACCAAGTCTAGAGTGGGCCTAGGGGGCATGGAAGCCAAGGTGAAAGCCGCCCTCTGGGCTTTGCAAGGCGGGACTTCTGTCGTCATTGCCAACGGGACCCACCCAAAGGTGTCTGGGCACGTCATCACAGACATCGTGGAGGGAAAGAAAGTTGGCACCTTCTTTTCAGAAGTGAAGCCTGCTGGTCCTACAGTGGAGCAGCAGGGGGAGATGGCTCGATCTGGTGGGAGAATGCTGGCTACCTTAGAGCCTGAACAGAGAGCTGAAATTATCAATCATCTGGCTGACCTGCTGACGGACCAGCGGGAAGAGATCCTGTTAGCCAACAAAAAAGATTTGGAGGAGGCAGAGGGTACTCCTGAGCACTAA
Peptide sequence:
MLRHMHRSGVQPFRQRLLPWVQSIAVPRSNRVQPSAIRHVRSWSNIPFITVPLSRAHGKPFAHRSELKHAKRIVVKLGSAVVTRGDECGLALGRLASIVEQVSVLQNQGREMMLVTSGAVAFGKQRLRHEILLSQSVRQALHSGQNHLKEMAIPVLEARACAAAGQSGLMALYEAMFTQYSICAAQILVTNLDFHDEQKRRNLNGTLHELLRMNIVPIVNTNDAVVPPAEPNSDLQGVISVKDNDSLAARLAVEMKTDLLIVLSDVEGLFDSPPGSDDAKLIDIFYPGDQQSVTFGTKSRVGLGGMEAKVKAALWALQGGTSVVIANGTHPKVSGHVITDIVEGKKVGTFFSEVKPAGPTVEQQGEMARSGGRMLATLEPEQRAEIINHLADLLTDQREEILLANKKDLEEAEGTPEH
IRESfinder result
IRESfinder score
0.401896058
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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