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mmu_circKalrn_1833
Basic information of circular RNA
PanCircBase ID:
mmu_circKalrn_1833
mm39_Chr. Position ID:
chr16|34018762|34072769|-
Gene name:
Kalrn
Transcript:
ENSMUST00000076810.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
25,24,23,22,21,20,19,18,17,16,15,14,13
Exon/intron offsets:
0,792,5468,6755,13765,14398,16622,19403,21663,28634,36852,45378,53832
Genomic length:
54007
Exon/intron sizes in nt:
1,10,67,11,91,83,12,31,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr16:34010107-34018762|chr16:34072769-34076521
Splice length:
1833
Other database IDs:
CIRCpedia: HSA_CIRCpedia_371543
Human Ortholog IDs:
Mature spliced Sequence:
GGACTCAGCGATGTCCAACAACAAGACACCCCACAGTAGCTCTATCAGCCATATTGAGTCTGTCCTCCAGCAGCTGGACGATGCTCAGGTACAGATGGAAGAGCTGTTTCACGAGCGGAAGATCAAGCTGGACATCTTCCTACAGCTGCGCATCTTTGAACAGTACACCATTGAGGTCACTGCAGAGCTGGATGCCTGGAACGAGGACTTGCTCCGGCAGATGAATGATTTCAACACAGAGGATCTGACCCTGGCTGAGCAGCGGCTACAGCGCCACACAGAACGGAAGCTTGCCATGAACAACATGACGTTCGAGGTCATCCAGCAGGGCCAGGACCTGCACCAGTACATCATGGAAGTGCAAGCGTCAGGAATCGAGTTAATCTGTGAGAAGGACCTTGACCTGGCAGCTCAGGTGCAGGAGCTGCTGGAGTTTCTCCATGAGAAGCAGCACGAGCTGGAGCTCAATGCGGAGCAGACGCACAAGCGGCTAGAGCAGTGTCTCCAGCTGAGGCACCTCCAGGCTGAGGTCAAACAGGTTCTGGGATGGATCCGCAATGGAGAGTCGATGCTCAACGCCAGCCTGGTCAACGCCAGCTCTTTGTCGGAGGCAGAGCAGCTGCAGCGGGAGCATGAACAGTTCCAGCTAGCCATCGAGAAGACGCACCAGAGCGCCCTGCAGGTACAGCAGAAGGCAGAGGCACTGCTCCAGGCCGGCCACTACGACGCAGACGCCATCCGGGAATGTGCTGAGAAGGTGGCCCTCCACTGGCAACAGCTCATGCTAAAGATGGAGGACCGGCTGAAGCTTGTCAACGCCTCTGTGGCCTTTTACAAGACCTCTGAGCAGGTGTGCAGTGTTCTGGAGAGCTTGGAGCAGGAGTACCGGAGAGACGAGGACTGGTGTGGTGGGAGAGACAAGCTGGGGCCGGCGGCAGAGATGGACCACGTTATTCCACTCCTCAGCAAGCACCTGGAGCAGAAGGAGGCCTTCCTGAAGGCCTGCACGCTGGCAAGGCGGAACGCCGAGGTGTTCCTCAAATACATCCACAGGAACAATGTGAGCATGCCTAGTGTTGCCAGCCACACCCGGGGGCCTGAACAGCAAGTAAAAGCCATCTTGAGCGAGCTCTTGCAGAGGGAGAATCGAGTCCTGCACTTCTGGACCTTGAAGAAGCGGCGGTTAGACCAGTGTCAGCAATATGTGGTGTTTGAGCGCAGTGCTAAGCAGGCACTGGACTGGATCCAAGAAACAGGAGAATATTACCTCTCAACACATACCTCCACCGGAGAGACCACGGAGGAGACTCAGGAGCTGCTGAAAGAGTATGGAGAATTCAGGGTGCCTGCCAAGCAAACGAAGGAGAAGGTGAAACTTCTGATCCAGCTAGCAGACAGCTTTGTGGAAAAGGGCCACATCCACGCCACAGAGATACGGAAATGGGTGACCACGGTGGACAAGCACTACCGCGATTTCTCCCTGAGGATGGGGAAGTACCGGTACTCGCTGGAGAAGGCGCTGGGGGTCAACACGGAGGATAACAAGGACCTAGAGCTGGACATCATCCCAGCAAGCCTTTCGGATCGGGAGGTCAAGCTCCGGGACGCTAACCATGAGATCAATGAAGAGAAACGGAAGTCAGCTCGAAAGAAAGAGTTCATTATGGCTGAACTGCTCCAAACTGAGAAGGCTTATGTAAGGGACTTGCACGAGTGCTTGGAGACCTACCTGTGGGAGATGACTAGTGGTGTGGAAGAGATACCCCCCGGCATCCTCAATAAGGAACATATCATCTTCGGCAACATCCAGGAGATCTATGACTTCCATAACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCGGCATCCTCAATAAG
60.25
GTACCTGAGCATCGTCCAGC
60.53
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCGGCATCCTCAATAAG
60.25
TACCTGAGCATCGTCCAGCT
60.68
161
PCR template sequence:
GGGAGATGACTAGTGGTGTGGAAGAGATACCCCCCGGCATCCTCAATAAGGAACATATCATCTTCGGCAACATCCAGGAGATCTATGACTTCCATAACAAGGACTCAGCGATGTCCAACAACAAGACACCCCACAGTAGCTCTATCAGCCATATTGAGTCTGTCCTCCAGCAGCTGGACGATGCTCAGGTACAGATGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(2), mmu-miR-207(2), mmu-miR-1904(2), mmu-miR-23b-3p(1), mmu-miR-135a-5p(1), mmu-miR-23a-3p(1), mmu-miR-127-3p(1), mmu-miR-22-3p(1), mmu-miR-370-3p(1), mmu-miR-383-5p(1), mmu-miR-190b-5p(1), mmu-miR-539-5p(1), mmu-miR-188-3p(1), mmu-miR-3105-3p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTCCATAACAAGGACTCAGCGATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKALRN_1833_ORF_1
1.2859
0.55908484
1
3654
ORF sequence:
ATGTCCAACAACAAGACACCCCACAGTAGCTCTATCAGCCATATTGAGTCTGTCCTCCAGCAGCTGGACGATGCTCAGGTACAGATGGAAGAGCTGTTTCACGAGCGGAAGATCAAGCTGGACATCTTCCTACAGCTGCGCATCTTTGAACAGTACACCATTGAGGTCACTGCAGAGCTGGATGCCTGGAACGAGGACTTGCTCCGGCAGATGAATGATTTCAACACAGAGGATCTGACCCTGGCTGAGCAGCGGCTACAGCGCCACACAGAACGGAAGCTTGCCATGAACAACATGACGTTCGAGGTCATCCAGCAGGGCCAGGACCTGCACCAGTACATCATGGAAGTGCAAGCGTCAGGAATCGAGTTAATCTGTGAGAAGGACCTTGACCTGGCAGCTCAGGTGCAGGAGCTGCTGGAGTTTCTCCATGAGAAGCAGCACGAGCTGGAGCTCAATGCGGAGCAGACGCACAAGCGGCTAGAGCAGTGTCTCCAGCTGAGGCACCTCCAGGCTGAGGTCAAACAGGTTCTGGGATGGATCCGCAATGGAGAGTCGATGCTCAACGCCAGCCTGGTCAACGCCAGCTCTTTGTCGGAGGCAGAGCAGCTGCAGCGGGAGCATGAACAGTTCCAGCTAGCCATCGAGAAGACGCACCAGAGCGCCCTGCAGGTACAGCAGAAGGCAGAGGCACTGCTCCAGGCCGGCCACTACGACGCAGACGCCATCCGGGAATGTGCTGAGAAGGTGGCCCTCCACTGGCAACAGCTCATGCTAAAGATGGAGGACCGGCTGAAGCTTGTCAACGCCTCTGTGGCCTTTTACAAGACCTCTGAGCAGGTGTGCAGTGTTCTGGAGAGCTTGGAGCAGGAGTACCGGAGAGACGAGGACTGGTGTGGTGGGAGAGACAAGCTGGGGCCGGCGGCAGAGATGGACCACGTTATTCCACTCCTCAGCAAGCACCTGGAGCAGAAGGAGGCCTTCCTGAAGGCCTGCACGCTGGCAAGGCGGAACGCCGAGGTGTTCCTCAAATACATCCACAGGAACAATGTGAGCATGCCTAGTGTTGCCAGCCACACCCGGGGGCCTGAACAGCAAGTAAAAGCCATCTTGAGCGAGCTCTTGCAGAGGGAGAATCGAGTCCTGCACTTCTGGACCTTGAAGAAGCGGCGGTTAGACCAGTGTCAGCAATATGTGGTGTTTGAGCGCAGTGCTAAGCAGGCACTGGACTGGATCCAAGAAACAGGAGAATATTACCTCTCAACACATACCTCCACCGGAGAGACCACGGAGGAGACTCAGGAGCTGCTGAAAGAGTATGGAGAATTCAGGGTGCCTGCCAAGCAAACGAAGGAGAAGGTGAAACTTCTGATCCAGCTAGCAGACAGCTTTGTGGAAAAGGGCCACATCCACGCCACAGAGATACGGAAATGGGTGACCACGGTGGACAAGCACTACCGCGATTTCTCCCTGAGGATGGGGAAGTACCGGTACTCGCTGGAGAAGGCGCTGGGGGTCAACACGGAGGATAACAAGGACCTAGAGCTGGACATCATCCCAGCAAGCCTTTCGGATCGGGAGGTCAAGCTCCGGGACGCTAACCATGAGATCAATGAAGAGAAACGGAAGTCAGCTCGAAAGAAAGAGTTCATTATGGCTGAACTGCTCCAAACTGAGAAGGCTTATGTAAGGGACTTGCACGAGTGCTTGGAGACCTACCTGTGGGAGATGACTAGTGGTGTGGAAGAGATACCCCCCGGCATCCTCAATAAGGAACATATCATCTTCGGCAACATCCAGGAGATCTATGACTTCCATAACAAGGACTCAGCGATGTCCAACAACAAGACACCCCACAGTAGCTCTATCAGCCATATTGAGTCTGTCCTCCAGCAGCTGGACGATGCTCAGGTACAGATGGAAGAGCTGTTTCACGAGCGGAAGATCAAGCTGGACATCTTCCTACAGCTGCGCATCTTTGAACAGTACACCATTGAGGTCACTGCAGAGCTGGATGCCTGGAACGAGGACTTGCTCCGGCAGATGAATGATTTCAACACAGAGGATCTGACCCTGGCTGAGCAGCGGCTACAGCGCCACACAGAACGGAAGCTTGCCATGAACAACATGACGTTCGAGGTCATCCAGCAGGGCCAGGACCTGCACCAGTACATCATGGAAGTGCAAGCGTCAGGAATCGAGTTAATCTGTGAGAAGGACCTTGACCTGGCAGCTCAGGTGCAGGAGCTGCTGGAGTTTCTCCATGAGAAGCAGCACGAGCTGGAGCTCAATGCGGAGCAGACGCACAAGCGGCTAGAGCAGTGTCTCCAGCTGAGGCACCTCCAGGCTGAGGTCAAACAGGTTCTGGGATGGATCCGCAATGGAGAGTCGATGCTCAACGCCAGCCTGGTCAACGCCAGCTCTTTGTCGGAGGCAGAGCAGCTGCAGCGGGAGCATGAACAGTTCCAGCTAGCCATCGAGAAGACGCACCAGAGCGCCCTGCAGGTACAGCAGAAGGCAGAGGCACTGCTCCAGGCCGGCCACTACGACGCAGACGCCATCCGGGAATGTGCTGAGAAGGTGGCCCTCCACTGGCAACAGCTCATGCTAAAGATGGAGGACCGGCTGAAGCTTGTCAACGCCTCTGTGGCCTTTTACAAGACCTCTGAGCAGGTGTGCAGTGTTCTGGAGAGCTTGGAGCAGGAGTACCGGAGAGACGAGGACTGGTGTGGTGGGAGAGACAAGCTGGGGCCGGCGGCAGAGATGGACCACGTTATTCCACTCCTCAGCAAGCACCTGGAGCAGAAGGAGGCCTTCCTGAAGGCCTGCACGCTGGCAAGGCGGAACGCCGAGGTGTTCCTCAAATACATCCACAGGAACAATGTGAGCATGCCTAGTGTTGCCAGCCACACCCGGGGGCCTGAACAGCAAGTAAAAGCCATCTTGAGCGAGCTCTTGCAGAGGGAGAATCGAGTCCTGCACTTCTGGACCTTGAAGAAGCGGCGGTTAGACCAGTGTCAGCAATATGTGGTGTTTGAGCGCAGTGCTAAGCAGGCACTGGACTGGATCCAAGAAACAGGAGAATATTACCTCTCAACACATACCTCCACCGGAGAGACCACGGAGGAGACTCAGGAGCTGCTGAAAGAGTATGGAGAATTCAGGGTGCCTGCCAAGCAAACGAAGGAGAAGGTGAAACTTCTGATCCAGCTAGCAGACAGCTTTGTGGAAAAGGGCCACATCCACGCCACAGAGATACGGAAATGGGTGACCACGGTGGACAAGCACTACCGCGATTTCTCCCTGAGGATGGGGAAGTACCGGTACTCGCTGGAGAAGGCGCTGGGGGTCAACACGGAGGATAACAAGGACCTAGAGCTGGACATCATCCCAGCAAGCCTTTCGGATCGGGAGGTCAAGCTCCGGGACGCTAACCATGAGATCAATGAAGAGAAACGGAAGTCAGCTCGAAAGAAAGAGTTCATTATGGCTGAACTGCTCCAAACTGAGAAGGCTTATGTAAGGGACTTGCACGAGTGCTTGGAGACCTACCTGTGGGAGATGACTAGTGGTGTGGAAGAGATACCCCCCGGCATCCTCAATAAGGAACATATCATCTTCGGCAACATCCAGGAGATCTATGACTTCCATAAC
Peptide sequence:
MSNNKTPHSSSISHIESVLQQLDDAQVQMEELFHERKIKLDIFLQLRIFEQYTIEVTAELDAWNEDLLRQMNDFNTEDLTLAEQRLQRHTERKLAMNNMTFEVIQQGQDLHQYIMEVQASGIELICEKDLDLAAQVQELLEFLHEKQHELELNAEQTHKRLEQCLQLRHLQAEVKQVLGWIRNGESMLNASLVNASSLSEAEQLQREHEQFQLAIEKTHQSALQVQQKAEALLQAGHYDADAIRECAEKVALHWQQLMLKMEDRLKLVNASVAFYKTSEQVCSVLESLEQEYRRDEDWCGGRDKLGPAAEMDHVIPLLSKHLEQKEAFLKACTLARRNAEVFLKYIHRNNVSMPSVASHTRGPEQQVKAILSELLQRENRVLHFWTLKKRRLDQCQQYVVFERSAKQALDWIQETGEYYLSTHTSTGETTEETQELLKEYGEFRVPAKQTKEKVKLLIQLADSFVEKGHIHATEIRKWVTTVDKHYRDFSLRMGKYRYSLEKALGVNTEDNKDLELDIIPASLSDREVKLRDANHEINEEKRKSARKKEFIMAELLQTEKAYVRDLHECLETYLWEMTSGVEEIPPGILNKEHIIFGNIQEIYDFHNKDSAMSNNKTPHSSSISHIESVLQQLDDAQVQMEELFHERKIKLDIFLQLRIFEQYTIEVTAELDAWNEDLLRQMNDFNTEDLTLAEQRLQRHTERKLAMNNMTFEVIQQGQDLHQYIMEVQASGIELICEKDLDLAAQVQELLEFLHEKQHELELNAEQTHKRLEQCLQLRHLQAEVKQVLGWIRNGESMLNASLVNASSLSEAEQLQREHEQFQLAIEKTHQSALQVQQKAEALLQAGHYDADAIRECAEKVALHWQQLMLKMEDRLKLVNASVAFYKTSEQVCSVLESLEQEYRRDEDWCGGRDKLGPAAEMDHVIPLLSKHLEQKEAFLKACTLARRNAEVFLKYIHRNNVSMPSVASHTRGPEQQVKAILSELLQRENRVLHFWTLKKRRLDQCQQYVVFERSAKQALDWIQETGEYYLSTHTSTGETTEETQELLKEYGEFRVPAKQTKEKVKLLIQLADSFVEKGHIHATEIRKWVTTVDKHYRDFSLRMGKYRYSLEKALGVNTEDNKDLELDIIPASLSDREVKLRDANHEINEEKRKSARKKEFIMAELLQTEKAYVRDLHECLETYLWEMTSGVEEIPPGILNKEHIIFGNIQEIYDFHN
IRESfinder result
IRESfinder score
0.222249295
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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