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mmu_circRimbp2_2620
Basic information of circular RNA
PanCircBase ID:
mmu_circRimbp2_2620
mm39_Chr. Position ID:
chr5|128838403|128878091|-
Gene name:
Rimbp2
Transcript:
ENSMUST00000198941.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
18,17,16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,8889,10360,11997,12829,18919,23451,25312,26819,28267,35691,39578
Genomic length:
39688
Exon/intron sizes in nt:
13,57,21,04,16,91,85,10,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:128837913-128838403|chr5:128878091-128879848
Splice length:
2620
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTACAACCCCTTCGATGGGCCCAATGAGAACCCAGAAGCTGAGCTGCCTCTCACGGCGGGAAAGTACCTCTATGTCTATGGGGACATGGATGAAGATGGGTTCTATGAAGGAGAGCTTCTGGATGGGCAAAGGGGCTTGGTGCCCTCCAACTTTGTGGATTTTATCCAGGACAATGAGTCGCGGCTGGCTGGTACTCTGGGGAGTGAGCAGGACCAGAACTTTCTCAACCACTCTGGCATCAGTCTGGAGCGCGACAGCATCCTTCACCTTCACTCCCCAACTCAAGTGGACTCGGGGATCACCGACAATGGTGGGGGGACCCTGGACGTGAACATCGACGACATCGGAGAAGACACCGTGCCTTACCCTAGGAAAATCACCCTTATCAAACAGCTTGCCAAAAGTGTCATCGTGGGCTGGGAGCCCCCTGCTGTGCCTCCCGGCTGGGGCACCGTGAGCAGTTATAATGTGCTGGTGGACAAAGAGACACGCATGAGCCTTGCCCTGGGTAGGAGAACTAAGGCGCTGATCGAGAAACTTAACACAGCTGCCTGCACCTACCGCATCTCCGTGCAGTGCGTCACGAGCCGGGGAAACTCAGACGAGCTGCAGTGCACTCTGCTGGTGGGCAAGGATGTGGTGGTGGCACCGTCCCAGCTGCGTGTGGACAACATCACACAGATCTCTGCCCAGCTCTCGTGGCTGCCGACCAACAGTAACTACAGCCATATCATCTTCCTCAACGAAGAAGAACTGGACATCGTGAAGGCAGCCAGGTACAAGTACCAATTCTTCAACCTCAGGCCTAATATGGCCTACAAGGTGAAGGTCTTGGCCCAGCCACACCAGATGCCCTGGCAGCTGCCGCTGGAGCAGAGAGAAAAGAAGGAGGCCTGTGTGGAGTTCTCCACGCTGCCTGCAGGACCTCCAGCCCCACCACAAGATGTCACTGTCCACGCTGGGGCCACAGCCGCCTCTGTTCAGGTCTCCTGGAAGCCCCCTGCACTGACTCCCACTGGGTTGTCCAATGGAGCAAATGTCACAGGATACGGCGTGTACGCCAAAGGGCAGAGGGTGGCTGAGGTCATCGCCCCCACGGCAGATGGCACGGCAGTGGAGCTGATCCGGCTGCGAAGCCTAGAGGCCAAGGCCGTGAGTGTGCGTACCCTGTCTGTACAGGGAGAGTCCATGGATTCTGCCCTCGCTGCCATCCCCCCTGACCTCCTGGTGCCTCCAGCCCCCCACCCGAGGACTGCTCCCCCACCAAAGCCATTAGCAAGTGACATGGATACCAAAGACCAACACCTGGGGCCCCACGTCAAAGTGGATGAGTCCTGGGAGCAGAGCCGGTCACCGGGCCCTGCACATGGCCACATGTTGGAACCACCTGACATGCACAGCGCTGGCCCAGGCAGAAGGTCACCCTCGCCCAGCCGGATCCTTCCTCAGCCACAAGGAGCCCCCGTGTCTACCACTGTCGCCAAGGCCATGGCCCGTGAAGCTGCACAGAGGGTGGCTGAGAGCAACAGGTTAGAGAAAAGGAGCCTCTTTCTAGAGCAAAGCAGTGCGGGGCAATATACCAACTCGGACGAGGAGGACGGCTACGCCTCCCCCGAGGTCAAGAGGAGAGGCACCTCAGTGGATGACTTCCTCAAAGGGTCAGAGCTGGGCAAGCAGCCCCACTGTTGCCATGGAGATGAGTACCACACAGAGAGCAGCCGGGGGTCAGACCTGTCGGACATCATGGAGGAGGATGAGGAGGAGCTATACTCAGAGATGCAGCTGGAGGATGGGGGCCGCCGTCGGCCCAGCGGTACCTCTCACAACGCCCTCAAGATTTTAGGAAACTCCACGTTGATGGGACGAGCAGACCGGATGGAACACGTGAGCCGAAGGTATTCACACAGTGGCGGAGGGTCTCATAGGCACCGCCCAGCGATGGCTCCATCCATTGATGAATACACCGGGCGAGACCATCTTTCTCCAGACTTCTATGATGAGTCCGAAACTGACCCTGGTGCTGAGGAGCTCCCAGCCCGTATCTTTGTGGCTCTGTTTGACTATGACCCACTGACCATGTCCCCAAACCCAGACGCTGCTGAAGAGGAGCTTCCCTTCAAAGAAGGACAGATCATCAAGGTATATGGAGACAAAGACGCAGATGGCTTCTACCGTGGGGAGACCTGTGCCAGGCTCGGCCTCATTCCCTGTAACATGGTCTCTGAGATCCATGCGGATGATGAGGAGATGATGGATCAGCTGCTGAGGCAAGGCTTCCTCCCTCTGAACACGCCTGTGGAGAAAATAGAGAGAAGTAGAAGAAGCGGCCGGGGTCACTCTGTACCCACACGAAGAATGGTGGCTCTCTACGACTATGATCCTAGGGAAAGCTCTCCTAACGTGGATGTTGAGGCTGAACTTCCATTTTGCACAGGAGACATTATTACTGTTTTTGGTGAAATCGATGAAGATGGATTTTATTATGGAGAGCTGAATGGGCAAAAAGGCCTCGTGCCTTCCAATTTCCTGGAAGAAGTGCCTGATGATGTGGAGGTCCACCTTTCTGATGCTCCGCCCCACTACTCCCACGACCCGCCCATGCGCTCCAAGGCCAAAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGATGATGTGGAGGTCC
60.18
TAGAGGTACTTTCCCGCCGT
60.32
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCCTGATGATGTGGAGGT
59.75
TAGAGGTACTTTCCCGCCGT
60.32
156
PCR template sequence:
CAATTTCCTGGAAGAAGTGCCTGATGATGTGGAGGTCCACCTTTCTGATGCTCCGCCCCACTACTCCCACGACCCGCCCATGCGCTCCAAGGCCAAAAGGTTACAACCCCTTCGATGGGCCCAATGAGAACCCAGAAGCTGAGCTGCCTCTCACGGCGGGAAAGTACCTCTATGTCTATGGGGACATGGATGAAGATGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-9-5p(1), mmu-miR-136-5p(1), mmu-miR-22-3p(1), mmu-miR-324-3p(1), mmu-miR-705(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGGCCAAAAGGTTACAACCCCTTC
siRNA sets
TTGTAACCTTTTGGCCTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRIMBP2_2620_ORF_1
1.1567
0.400291197
0.999999988
2745
ORF sequence:
ATGGGCAAAAAGGCCTCGTGCCTTCCAATTTCCTGGAAGAAGTGCCTGATGATGTGGAGGTCCACCTTTCTGATGCTCCGCCCCACTACTCCCACGACCCGCCCATGCGCTCCAAGGCCAAAAGGTTACAACCCCTTCGATGGGCCCAATGAGAACCCAGAAGCTGAGCTGCCTCTCACGGCGGGAAAGTACCTCTATGTCTATGGGGACATGGATGAAGATGGGTTCTATGAAGGAGAGCTTCTGGATGGGCAAAGGGGCTTGGTGCCCTCCAACTTTGTGGATTTTATCCAGGACAATGAGTCGCGGCTGGCTGGTACTCTGGGGAGTGAGCAGGACCAGAACTTTCTCAACCACTCTGGCATCAGTCTGGAGCGCGACAGCATCCTTCACCTTCACTCCCCAACTCAAGTGGACTCGGGGATCACCGACAATGGTGGGGGGACCCTGGACGTGAACATCGACGACATCGGAGAAGACACCGTGCCTTACCCTAGGAAAATCACCCTTATCAAACAGCTTGCCAAAAGTGTCATCGTGGGCTGGGAGCCCCCTGCTGTGCCTCCCGGCTGGGGCACCGTGAGCAGTTATAATGTGCTGGTGGACAAAGAGACACGCATGAGCCTTGCCCTGGGTAGGAGAACTAAGGCGCTGATCGAGAAACTTAACACAGCTGCCTGCACCTACCGCATCTCCGTGCAGTGCGTCACGAGCCGGGGAAACTCAGACGAGCTGCAGTGCACTCTGCTGGTGGGCAAGGATGTGGTGGTGGCACCGTCCCAGCTGCGTGTGGACAACATCACACAGATCTCTGCCCAGCTCTCGTGGCTGCCGACCAACAGTAACTACAGCCATATCATCTTCCTCAACGAAGAAGAACTGGACATCGTGAAGGCAGCCAGGTACAAGTACCAATTCTTCAACCTCAGGCCTAATATGGCCTACAAGGTGAAGGTCTTGGCCCAGCCACACCAGATGCCCTGGCAGCTGCCGCTGGAGCAGAGAGAAAAGAAGGAGGCCTGTGTGGAGTTCTCCACGCTGCCTGCAGGACCTCCAGCCCCACCACAAGATGTCACTGTCCACGCTGGGGCCACAGCCGCCTCTGTTCAGGTCTCCTGGAAGCCCCCTGCACTGACTCCCACTGGGTTGTCCAATGGAGCAAATGTCACAGGATACGGCGTGTACGCCAAAGGGCAGAGGGTGGCTGAGGTCATCGCCCCCACGGCAGATGGCACGGCAGTGGAGCTGATCCGGCTGCGAAGCCTAGAGGCCAAGGCCGTGAGTGTGCGTACCCTGTCTGTACAGGGAGAGTCCATGGATTCTGCCCTCGCTGCCATCCCCCCTGACCTCCTGGTGCCTCCAGCCCCCCACCCGAGGACTGCTCCCCCACCAAAGCCATTAGCAAGTGACATGGATACCAAAGACCAACACCTGGGGCCCCACGTCAAAGTGGATGAGTCCTGGGAGCAGAGCCGGTCACCGGGCCCTGCACATGGCCACATGTTGGAACCACCTGACATGCACAGCGCTGGCCCAGGCAGAAGGTCACCCTCGCCCAGCCGGATCCTTCCTCAGCCACAAGGAGCCCCCGTGTCTACCACTGTCGCCAAGGCCATGGCCCGTGAAGCTGCACAGAGGGTGGCTGAGAGCAACAGGTTAGAGAAAAGGAGCCTCTTTCTAGAGCAAAGCAGTGCGGGGCAATATACCAACTCGGACGAGGAGGACGGCTACGCCTCCCCCGAGGTCAAGAGGAGAGGCACCTCAGTGGATGACTTCCTCAAAGGGTCAGAGCTGGGCAAGCAGCCCCACTGTTGCCATGGAGATGAGTACCACACAGAGAGCAGCCGGGGGTCAGACCTGTCGGACATCATGGAGGAGGATGAGGAGGAGCTATACTCAGAGATGCAGCTGGAGGATGGGGGCCGCCGTCGGCCCAGCGGTACCTCTCACAACGCCCTCAAGATTTTAGGAAACTCCACGTTGATGGGACGAGCAGACCGGATGGAACACGTGAGCCGAAGGTATTCACACAGTGGCGGAGGGTCTCATAGGCACCGCCCAGCGATGGCTCCATCCATTGATGAATACACCGGGCGAGACCATCTTTCTCCAGACTTCTATGATGAGTCCGAAACTGACCCTGGTGCTGAGGAGCTCCCAGCCCGTATCTTTGTGGCTCTGTTTGACTATGACCCACTGACCATGTCCCCAAACCCAGACGCTGCTGAAGAGGAGCTTCCCTTCAAAGAAGGACAGATCATCAAGGTATATGGAGACAAAGACGCAGATGGCTTCTACCGTGGGGAGACCTGTGCCAGGCTCGGCCTCATTCCCTGTAACATGGTCTCTGAGATCCATGCGGATGATGAGGAGATGATGGATCAGCTGCTGAGGCAAGGCTTCCTCCCTCTGAACACGCCTGTGGAGAAAATAGAGAGAAGTAGAAGAAGCGGCCGGGGTCACTCTGTACCCACACGAAGAATGGTGGCTCTCTACGACTATGATCCTAGGGAAAGCTCTCCTAACGTGGATGTTGAGGCTGAACTTCCATTTTGCACAGGAGACATTATTACTGTTTTTGGTGAAATCGATGAAGATGGATTTTATTATGGAGAGCTGAATGGGCAAAAAGGCCTCGTGCCTTCCAATTTCCTGGAAGAAGTGCCTGATGATGTGGAGGTCCACCTTTCTGATGCTCCGCCCCACTACTCCCACGACCCGCCCATGCGCTCCAAGGCCAAAAGG
Peptide sequence:
MGKKASCLPISWKKCLMMWRSTFLMLRPTTPTTRPCAPRPKGYNPFDGPNENPEAELPLTAGKYLYVYGDMDEDGFYEGELLDGQRGLVPSNFVDFIQDNESRLAGTLGSEQDQNFLNHSGISLERDSILHLHSPTQVDSGITDNGGGTLDVNIDDIGEDTVPYPRKITLIKQLAKSVIVGWEPPAVPPGWGTVSSYNVLVDKETRMSLALGRRTKALIEKLNTAACTYRISVQCVTSRGNSDELQCTLLVGKDVVVAPSQLRVDNITQISAQLSWLPTNSNYSHIIFLNEEELDIVKAARYKYQFFNLRPNMAYKVKVLAQPHQMPWQLPLEQREKKEACVEFSTLPAGPPAPPQDVTVHAGATAASVQVSWKPPALTPTGLSNGANVTGYGVYAKGQRVAEVIAPTADGTAVELIRLRSLEAKAVSVRTLSVQGESMDSALAAIPPDLLVPPAPHPRTAPPPKPLASDMDTKDQHLGPHVKVDESWEQSRSPGPAHGHMLEPPDMHSAGPGRRSPSPSRILPQPQGAPVSTTVAKAMAREAAQRVAESNRLEKRSLFLEQSSAGQYTNSDEEDGYASPEVKRRGTSVDDFLKGSELGKQPHCCHGDEYHTESSRGSDLSDIMEEDEEELYSEMQLEDGGRRRPSGTSHNALKILGNSTLMGRADRMEHVSRRYSHSGGGSHRHRPAMAPSIDEYTGRDHLSPDFYDESETDPGAEELPARIFVALFDYDPLTMSPNPDAAEEELPFKEGQIIKVYGDKDADGFYRGETCARLGLIPCNMVSEIHADDEEMMDQLLRQGFLPLNTPVEKIERSRRSGRGHSVPTRRMVALYDYDPRESSPNVDVEAELPFCTGDIITVFGEIDEDGFYYGELNGQKGLVPSNFLEEVPDDVEVHLSDAPPHYSHDPPMRSKAKR
IRESfinder result
IRESfinder score
0.320655065
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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