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mmu_circAbl2_1842
Basic information of circular RNA
PanCircBase ID:
mmu_circAbl2_1842
mm39_Chr. Position ID:
chr1|156450054|156468799|+
Gene name:
Abl2
Transcript:
ENSMUST00000166172.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,2803,7368,8860,10595,11268,12580,14333,17954,18508
Genomic length:
18745
Exon/intron sizes in nt:
1,71,29,62,73,85,17,81,00,00,00,00,00,000
Flanking exon/introns:
chr1:156448471-156450054|chr1:156468799-156469111
Splice length:
1842
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225265, circAtlas: mmu-Abl2_0013
circAtlas: hsa-ABL2_0022, CIRCpedia: HSA_CIRCpedia_69241
Human Ortholog IDs:
Mature spliced Sequence:
AAGTTTTGCACCGCCCGTTTGGCTGTGATGCTGAATCTCAGGCACTGAATGAAGCGATCAGGTGGAGCTCCAAGGAGAACTTGCTGGGAGCCACTGAGAGTGACCCTAATCTCTTTGTTGCACTTTATGACTTTGTGGCAAGTGGTGATAACACACTCAGTATCACTAAAGGTGAAAAGCTGCGAGTCCTTGGTTATAACCAGAATGGCGAGTGGAGTGAAGTTCGCTCCAAGAATGGACAGGGTTGGGTGCCAAGCAACTACATCACTCCAGTTAATAGCCTGGAGAAACATTCCTGGTACCACGGACCTGTATCCCGCAGCGCAGCAGAGTATCTCCTCAGCAGCCTAATCAATGGCAGCTTCCTGGTTCGAGAGAGTGAGAGCAGCCCTGGGCAGCTGTCCATCTCTCTCAGGTATGAGGGACGTGTGTATCACTACAGGATCAATACCACCACAGACAGCAAGGTGTACGTGACAGCTGAGAGCCGCTTTAGCACCTTGGCAGAGCTTGTTCACCACCACTCCACAGTTGCTGATGGGCTAGTGACCACGCTGCACTACCCAGCACCGAAGTGCAACAAGCCAACCGTCTATGGCGTGTCTCCTATCCATGACAAGTGGGAAATGGAACGGACAGATATCACCATGAAGCACAAACTTGGGGGCGGTCAGTACGGAGAGGTTTACGTTGGCGTCTGGAAGAAGTACAGCCTTACAGTGGCTGTGAAAACACTGAAGGAAGACACCATGGAGGTGGAGGAGTTCCTGAAGGAAGCTGCAGTGATGAAGGAGATCAAGCATCCTAACTTAGTACAACTGCTAGGTGTGTGTACCCTGGAGCCACCGTTTTACATTGTGACTGAATACATGCCGTATGGGAACCTGCTTGACTATCTCCGGGAGTGCAGCCGAGAGGAGGTGACCGCCGTCGTGTTACTTTACATGGCCACCCAGATCTCCTCTGCCATGGAGTACTTGGAGAAGAAGAACTTCATCCATAGAGATCTTGCTGCCCGGAACTGCCTAGTGGGCGAGAACCATGTGGTGAAAGTGGCCGACTTTGGTTTAAGTAGACTGATGACTGGAGATACCTACACTGCTCATGCTGGAGCCAAATTTCCTATTAAATGGACAGCACCCGAGAGTCTGGCCTACAATACCTTTTCAATTAAATCTGACGTTTGGGCGTTTGGAGTACTGTTGTGGGAAATTGCTACATATGGAATGTCACCATATCCAGGTATTGACCTATCTCAAGTCTATGACCTACTGGAAAAAGGATATCGAATGGAACAGCCTGAGGGATGCCCCCCTAAAGTGTATGAACTTATGAGAGCATGCTGGAAGTGGAGCCCTGCTGACAGGCCCTCTTTTGCTGAAACCCATCAAGCTTTTGAAACAATGTTCCATGACTCCAGCATCTCTGAAGAGGTAGCTGAGGAGCTTGGGAGAACGGCCTCCTCCTCCTCTGTGGTTCCATACCTGCCTCGGTTACCGCTGCTTCCTTCCAAGACGAGGACCCTGAGGAAGCAGGGGGAGAACAAAGAGAACCTAGATGGGGGCCTTGATGCCGCCGAGAGCCTGGCCTCCAGCTCAGCACCAGCAGGGTTCATTAGAAGCACACAGGCCTCCAGTGGGTCCCCAGCTCTGCCTCGAAAGCAAAGAGATAAGTCGCCCAGCAGCCTCTTAGAAGATGCCAAAGAGACATGCTTTACCAGGGATAGGAAGGGGGGCTTCTTCAGCTCCTTCATGAAAAAGAGGAACGCCCCCACGCCCCCGAAGCGCAGCAGCTCCTTTCGAGAAATGGAGAATCAGCCCCACAAGAAATATGAACTCACGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAAAAGAGGAACGCCCCCA
60.54
GCTCCCAGCAAGTTCTCCTT
59.96
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGCAGCTCCTTTCGAGAA
60.67
GCTCCCAGCAAGTTCTCCTT
59.96
148
PCR template sequence:
AGCTCCTTCATGAAAAAGAGGAACGCCCCCACGCCCCCGAAGCGCAGCAGCTCCTTTCGAGAAATGGAGAATCAGCCCCACAAGAAATATGAACTCACGGAAGTTTTGCACCGCCCGTTTGGCTGTGATGCTGAATCTCAGGCACTGAATGAAGCGATCAGGTGGAGCTCCAAGGAGAACTTGCTGGGAGCCACTGAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(2), mmu-miR-106a-5p(1), mmu-miR-17-5p(1), mmu-miR-150-5p(1), mmu-miR-34c-5p(1), mmu-miR-26a-5p(1), mmu-miR-205-5p(1), mmu-miR-106b-5p(1), mmu-miR-709(1), mmu-miR-324-5p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-503-5p(1), mmu-miR-136-5p(1), mmu-miR-22-3p(1), mmu-miR-96-5p(1), mmu-miR-130b-3p(1), mmu-miR-721(1), mmu-miR-370-3p(1), mmu-miR-680(1), mmu-miR-207(1), mmu-miR-188-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATGAACTCACGGAAGTTTTGCACCG
siRNA sets
AAAACTTCCGTGAGTTCAT, CAAAACTTCCGTGAGTTCA, AAACTTCCGTGAGTTCATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABL2_1842_ORF_1
1.0236
0.290032689
0.999999998
3057
ORF sequence:
ATGGAACGGACAGATATCACCATGAAGCACAAACTTGGGGGCGGTCAGTACGGAGAGGTTTACGTTGGCGTCTGGAAGAAGTACAGCCTTACAGTGGCTGTGAAAACACTGAAGGAAGACACCATGGAGGTGGAGGAGTTCCTGAAGGAAGCTGCAGTGATGAAGGAGATCAAGCATCCTAACTTAGTACAACTGCTAGGTGTGTGTACCCTGGAGCCACCGTTTTACATTGTGACTGAATACATGCCGTATGGGAACCTGCTTGACTATCTCCGGGAGTGCAGCCGAGAGGAGGTGACCGCCGTCGTGTTACTTTACATGGCCACCCAGATCTCCTCTGCCATGGAGTACTTGGAGAAGAAGAACTTCATCCATAGAGATCTTGCTGCCCGGAACTGCCTAGTGGGCGAGAACCATGTGGTGAAAGTGGCCGACTTTGGTTTAAGTAGACTGATGACTGGAGATACCTACACTGCTCATGCTGGAGCCAAATTTCCTATTAAATGGACAGCACCCGAGAGTCTGGCCTACAATACCTTTTCAATTAAATCTGACGTTTGGGCGTTTGGAGTACTGTTGTGGGAAATTGCTACATATGGAATGTCACCATATCCAGGTATTGACCTATCTCAAGTCTATGACCTACTGGAAAAAGGATATCGAATGGAACAGCCTGAGGGATGCCCCCCTAAAGTGTATGAACTTATGAGAGCATGCTGGAAGTGGAGCCCTGCTGACAGGCCCTCTTTTGCTGAAACCCATCAAGCTTTTGAAACAATGTTCCATGACTCCAGCATCTCTGAAGAGGTAGCTGAGGAGCTTGGGAGAACGGCCTCCTCCTCCTCTGTGGTTCCATACCTGCCTCGGTTACCGCTGCTTCCTTCCAAGACGAGGACCCTGAGGAAGCAGGGGGAGAACAAAGAGAACCTAGATGGGGGCCTTGATGCCGCCGAGAGCCTGGCCTCCAGCTCAGCACCAGCAGGGTTCATTAGAAGCACACAGGCCTCCAGTGGGTCCCCAGCTCTGCCTCGAAAGCAAAGAGATAAGTCGCCCAGCAGCCTCTTAGAAGATGCCAAAGAGACATGCTTTACCAGGGATAGGAAGGGGGGCTTCTTCAGCTCCTTCATGAAAAAGAGGAACGCCCCCACGCCCCCGAAGCGCAGCAGCTCCTTTCGAGAAATGGAGAATCAGCCCCACAAGAAATATGAACTCACGGAAGTTTTGCACCGCCCGTTTGGCTGTGATGCTGAATCTCAGGCACTGAATGAAGCGATCAGGTGGAGCTCCAAGGAGAACTTGCTGGGAGCCACTGAGAGTGACCCTAATCTCTTTGTTGCACTTTATGACTTTGTGGCAAGTGGTGATAACACACTCAGTATCACTAAAGGTGAAAAGCTGCGAGTCCTTGGTTATAACCAGAATGGCGAGTGGAGTGAAGTTCGCTCCAAGAATGGACAGGGTTGGGTGCCAAGCAACTACATCACTCCAGTTAATAGCCTGGAGAAACATTCCTGGTACCACGGACCTGTATCCCGCAGCGCAGCAGAGTATCTCCTCAGCAGCCTAATCAATGGCAGCTTCCTGGTTCGAGAGAGTGAGAGCAGCCCTGGGCAGCTGTCCATCTCTCTCAGGTATGAGGGACGTGTGTATCACTACAGGATCAATACCACCACAGACAGCAAGGTGTACGTGACAGCTGAGAGCCGCTTTAGCACCTTGGCAGAGCTTGTTCACCACCACTCCACAGTTGCTGATGGGCTAGTGACCACGCTGCACTACCCAGCACCGAAGTGCAACAAGCCAACCGTCTATGGCGTGTCTCCTATCCATGACAAGTGGGAAATGGAACGGACAGATATCACCATGAAGCACAAACTTGGGGGCGGTCAGTACGGAGAGGTTTACGTTGGCGTCTGGAAGAAGTACAGCCTTACAGTGGCTGTGAAAACACTGAAGGAAGACACCATGGAGGTGGAGGAGTTCCTGAAGGAAGCTGCAGTGATGAAGGAGATCAAGCATCCTAACTTAGTACAACTGCTAGGTGTGTGTACCCTGGAGCCACCGTTTTACATTGTGACTGAATACATGCCGTATGGGAACCTGCTTGACTATCTCCGGGAGTGCAGCCGAGAGGAGGTGACCGCCGTCGTGTTACTTTACATGGCCACCCAGATCTCCTCTGCCATGGAGTACTTGGAGAAGAAGAACTTCATCCATAGAGATCTTGCTGCCCGGAACTGCCTAGTGGGCGAGAACCATGTGGTGAAAGTGGCCGACTTTGGTTTAAGTAGACTGATGACTGGAGATACCTACACTGCTCATGCTGGAGCCAAATTTCCTATTAAATGGACAGCACCCGAGAGTCTGGCCTACAATACCTTTTCAATTAAATCTGACGTTTGGGCGTTTGGAGTACTGTTGTGGGAAATTGCTACATATGGAATGTCACCATATCCAGGTATTGACCTATCTCAAGTCTATGACCTACTGGAAAAAGGATATCGAATGGAACAGCCTGAGGGATGCCCCCCTAAAGTGTATGAACTTATGAGAGCATGCTGGAAGTGGAGCCCTGCTGACAGGCCCTCTTTTGCTGAAACCCATCAAGCTTTTGAAACAATGTTCCATGACTCCAGCATCTCTGAAGAGGTAGCTGAGGAGCTTGGGAGAACGGCCTCCTCCTCCTCTGTGGTTCCATACCTGCCTCGGTTACCGCTGCTTCCTTCCAAGACGAGGACCCTGAGGAAGCAGGGGGAGAACAAAGAGAACCTAGATGGGGGCCTTGATGCCGCCGAGAGCCTGGCCTCCAGCTCAGCACCAGCAGGGTTCATTAGAAGCACACAGGCCTCCAGTGGGTCCCCAGCTCTGCCTCGAAAGCAAAGAGATAAGTCGCCCAGCAGCCTCTTAGAAGATGCCAAAGAGACATGCTTTACCAGGGATAGGAAGGGGGGCTTCTTCAGCTCCTTCATGAAAAAGAGGAACGCCCCCACGCCCCCGAAGCGCAGCAGCTCCTTTCGAGAAATGGAGAATCAGCCCCACAAGAAATATGAACTCACG
Peptide sequence:
MERTDITMKHKLGGGQYGEVYVGVWKKYSLTVAVKTLKEDTMEVEEFLKEAAVMKEIKHPNLVQLLGVCTLEPPFYIVTEYMPYGNLLDYLRECSREEVTAVVLLYMATQISSAMEYLEKKNFIHRDLAARNCLVGENHVVKVADFGLSRLMTGDTYTAHAGAKFPIKWTAPESLAYNTFSIKSDVWAFGVLLWEIATYGMSPYPGIDLSQVYDLLEKGYRMEQPEGCPPKVYELMRACWKWSPADRPSFAETHQAFETMFHDSSISEEVAEELGRTASSSSVVPYLPRLPLLPSKTRTLRKQGENKENLDGGLDAAESLASSSAPAGFIRSTQASSGSPALPRKQRDKSPSSLLEDAKETCFTRDRKGGFFSSFMKKRNAPTPPKRSSSFREMENQPHKKYELTEVLHRPFGCDAESQALNEAIRWSSKENLLGATESDPNLFVALYDFVASGDNTLSITKGEKLRVLGYNQNGEWSEVRSKNGQGWVPSNYITPVNSLEKHSWYHGPVSRSAAEYLLSSLINGSFLVRESESSPGQLSISLRYEGRVYHYRINTTTDSKVYVTAESRFSTLAELVHHHSTVADGLVTTLHYPAPKCNKPTVYGVSPIHDKWEMERTDITMKHKLGGGQYGEVYVGVWKKYSLTVAVKTLKEDTMEVEEFLKEAAVMKEIKHPNLVQLLGVCTLEPPFYIVTEYMPYGNLLDYLRECSREEVTAVVLLYMATQISSAMEYLEKKNFIHRDLAARNCLVGENHVVKVADFGLSRLMTGDTYTAHAGAKFPIKWTAPESLAYNTFSIKSDVWAFGVLLWEIATYGMSPYPGIDLSQVYDLLEKGYRMEQPEGCPPKVYELMRACWKWSPADRPSFAETHQAFETMFHDSSISEEVAEELGRTASSSSVVPYLPRLPLLPSKTRTLRKQGENKENLDGGLDAAESLASSSAPAGFIRSTQASSGSPALPRKQRDKSPSSLLEDAKETCFTRDRKGGFFSSFMKKRNAPTPPKRSSSFREMENQPHKKYELT
IRESfinder result
IRESfinder score
0.438310545
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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