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mmu_circTtc21b_1744
Basic information of circular RNA
PanCircBase ID:
mmu_circTtc21b_1744
mm39_Chr. Position ID:
chr2|66031466|66059483|-
Gene name:
Ttc21b
Transcript:
ENSMUST00000102718.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
24,23,22,21,20,19,18,17,16,15,14,13
Exon/intron offsets:
0,350,6329,7531,8869,16062,21531,22392,22953,24783,25608,27859
Genomic length:
28017
Exon/intron sizes in nt:
1,62,15,18,21,11,18,91,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:66028207-66031466|chr2:66059483-66061632
Splice length:
1744
Other database IDs:
CIRCpedia: MMU_CIRCpedia_26460, circAtlas: mmu-Ttc21b_0008
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTGACACTGAAGCGGCATACAACAATCTGCAGCACTGCCTCGAGCACAGCCCCTCCTATGCGGAGGCTCACCTCCTGATGGCACAGGTGTACCTGTCCCAAGACAAAGTCAAGCTGTGTTCGCAGTCGCTTGAACTTTGTCTGAGCTACAATTTTAATGTGAGAGAGTACCCATTATATCATTTAATCAAAGCACAGTCACAAAAGAAAATGGGGGAAGTAGCAGAAGCAATTAAAACTCTGCACATGGCAATGAACCTGCCAGGAATGAGGAGAAGCAGAGCCTCCTCGAAATCAAAGCACAGAACTGAGGTGGACGCGAGCCATCGGTTATCCATCTTCCTGGAGTTGGTGGAGGTCCACCGCTTAAATGGAGAACAGCATGAGGCAGCAAAGGTTTTACAGGATGCCATCCATGAGTTTTCGGGAACTTGTGAAGAATTACGTGTCACTATTGCTAATGCAGACCTGGCTCTGGCCCAAGGAGATACGGATCGTGCATTAAGCATGCTTCGAAATGTCACAACCGAACAGCCTTATTTTATAGAGGCCAAAGAAAAGATGGCAGATATTTATCTGAAGCATAGGAAAGAGAAAATGTTGTATATCACTTGTTACAGAGAAATTGCTGAGAGAATGCCCAGTCCCCGGTCTTTCCTGCTCCTCGGCGATGCGTACATGAACATTCAGGAGCCAGAAGAAGCCATAGTGGCCTATGAGCAAGCACTCAATCAGAACCCCAAAGATGGAACACTGGCAAGAAAAATTGGAAAAGCACTTGTCAAAACTCACAATTACTCAAAGGCAATCACCTATTATGAAGCGGCTCTGAAAAGTGGACAGCAGAATTGCCTTTGCTATGACCTGGCCGAGCTGCTACTGAGACTGAAGCTGTACGAGAAAGCAGAGAAAGTGCTCCAGCACTCTCTAGCTCATGAGCCTGTAAGTGAGTTGTCAGCTCTCATGGTGGATGGGCGGTCCCAAGTCCTTCTTGCAAAAGTTTACTCTAAAATGGAGAGACCCAGCGACGCGATTGCCGCATTACAGCAGGCTCGAGAGCTGCAGGCTCGGATATTGAAGCGAGTTCAGATGGAGCAGCCAGATGCAGTTCCTTCACAGAAACACTTCGCAGCTGAAATTTGTGCAGAGATTGCGAAACACTCCGCCGCTCAGCGAGACTATGAGAAAGCAATTACATTTTATAGAGAAGCCCTGGTTCATTGTGAAACAGACAGTAAGATAATGTTGGAACTGGCGCAGTTATACCTGGCCCAAGAAGACCTTGACGCCTCCCTGCGACACTGTGCGCTGCTTCTCCAGAGGGACCAGGACAATGAACCTGCCACCATGTTGATGGCCGACCTCATGTTCAGAAAGCAAGACTATGAACAAGCAGTGTATCATCTGCAGCAGCTTTTAGACCGGAAACCAGATAATTTTATGACTTTGTCCCGTTTGATTGATCTCCTGAGAAGATGTGGGAAACTTGAGGATGTTCCGAGATTTTTCTTGATGGCTGAGAAACACAACTCCAGAACAAAATTGGAGCCAGGATTTCAGTACTGTAAAGGATTACATTTTTGGTATACTGGAGAACCAAATGATGCCCTTCGACATTTTAATAAAGCTCGGAAAGATAGTGACTGGGGTCAGAATGCACTTTATAATATGATAGAAATCTGCCTAAATCCAGACAATGAAACTATTGGAGGTGAAGTGTTTGAAAACCTGAATGGAGACCTGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGCCTAAATCCAGACAATGA
57.16
CTGTGCCATCAGGAGGTGAG
60.11
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGACAATGAAACTATTGGAGGT
59.99
CTGTGCCATCAGGAGGTGAG
60.11
143
PCR template sequence:
GGGGTCAGAATGCACTTTATAATATGATAGAAATCTGCCTAAATCCAGACAATGAAACTATTGGAGGTGAAGTGTTTGAAAACCTGAATGGAGACCTGGGGTGACACTGAAGCGGCATACAACAATCTGCAGCACTGCCTCGAGCACAGCCCCTCCTATGCGGAGGCTCACCTCCTGATGGCACAGGTGTACCTGTCCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(2), mmu-miR-136-5p(2), mmu-miR-9-5p(1), mmu-miR-134-5p(1), mmu-miR-20a-5p(1), mmu-miR-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-101a-3p(1), mmu-miR-217-5p(1), mmu-miR-101b-3p(1), mmu-miR-196a-5p(1), mmu-miR-709(1), mmu-miR-128-3p(1), mmu-miR-503-5p(1), mmu-miR-218-5p(1), mmu-miR-207(1), mmu-miR-3087-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGGAGACCTGGGGTGACACTGAAGC
siRNA sets
TTCAGTGTCACCCCAGGTC, AGTGTCACCCCAGGTCTCC, TCAGTGTCACCCCAGGTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTTC21B_1744_ORF_1
1.0574
0.202584247
0.999960323
1755
ORF sequence:
ATGGAGACCTGGGGTGACACTGAAGCGGCATACAACAATCTGCAGCACTGCCTCGAGCACAGCCCCTCCTATGCGGAGGCTCACCTCCTGATGGCACAGGTGTACCTGTCCCAAGACAAAGTCAAGCTGTGTTCGCAGTCGCTTGAACTTTGTCTGAGCTACAATTTTAATGTGAGAGAGTACCCATTATATCATTTAATCAAAGCACAGTCACAAAAGAAAATGGGGGAAGTAGCAGAAGCAATTAAAACTCTGCACATGGCAATGAACCTGCCAGGAATGAGGAGAAGCAGAGCCTCCTCGAAATCAAAGCACAGAACTGAGGTGGACGCGAGCCATCGGTTATCCATCTTCCTGGAGTTGGTGGAGGTCCACCGCTTAAATGGAGAACAGCATGAGGCAGCAAAGGTTTTACAGGATGCCATCCATGAGTTTTCGGGAACTTGTGAAGAATTACGTGTCACTATTGCTAATGCAGACCTGGCTCTGGCCCAAGGAGATACGGATCGTGCATTAAGCATGCTTCGAAATGTCACAACCGAACAGCCTTATTTTATAGAGGCCAAAGAAAAGATGGCAGATATTTATCTGAAGCATAGGAAAGAGAAAATGTTGTATATCACTTGTTACAGAGAAATTGCTGAGAGAATGCCCAGTCCCCGGTCTTTCCTGCTCCTCGGCGATGCGTACATGAACATTCAGGAGCCAGAAGAAGCCATAGTGGCCTATGAGCAAGCACTCAATCAGAACCCCAAAGATGGAACACTGGCAAGAAAAATTGGAAAAGCACTTGTCAAAACTCACAATTACTCAAAGGCAATCACCTATTATGAAGCGGCTCTGAAAAGTGGACAGCAGAATTGCCTTTGCTATGACCTGGCCGAGCTGCTACTGAGACTGAAGCTGTACGAGAAAGCAGAGAAAGTGCTCCAGCACTCTCTAGCTCATGAGCCTGTAAGTGAGTTGTCAGCTCTCATGGTGGATGGGCGGTCCCAAGTCCTTCTTGCAAAAGTTTACTCTAAAATGGAGAGACCCAGCGACGCGATTGCCGCATTACAGCAGGCTCGAGAGCTGCAGGCTCGGATATTGAAGCGAGTTCAGATGGAGCAGCCAGATGCAGTTCCTTCACAGAAACACTTCGCAGCTGAAATTTGTGCAGAGATTGCGAAACACTCCGCCGCTCAGCGAGACTATGAGAAAGCAATTACATTTTATAGAGAAGCCCTGGTTCATTGTGAAACAGACAGTAAGATAATGTTGGAACTGGCGCAGTTATACCTGGCCCAAGAAGACCTTGACGCCTCCCTGCGACACTGTGCGCTGCTTCTCCAGAGGGACCAGGACAATGAACCTGCCACCATGTTGATGGCCGACCTCATGTTCAGAAAGCAAGACTATGAACAAGCAGTGTATCATCTGCAGCAGCTTTTAGACCGGAAACCAGATAATTTTATGACTTTGTCCCGTTTGATTGATCTCCTGAGAAGATGTGGGAAACTTGAGGATGTTCCGAGATTTTTCTTGATGGCTGAGAAACACAACTCCAGAACAAAATTGGAGCCAGGATTTCAGTACTGTAAAGGATTACATTTTTGGTATACTGGAGAACCAAATGATGCCCTTCGACATTTTAATAAAGCTCGGAAAGATAGTGACTGGGGTCAGAATGCACTTTATAATATGATAGAAATCTGCCTAAATCCAGACAATGAAACTATTGGAGGTGAAGTGTTTGAAAACCTGAATGGAGACCTG
Peptide sequence:
METWGDTEAAYNNLQHCLEHSPSYAEAHLLMAQVYLSQDKVKLCSQSLELCLSYNFNVREYPLYHLIKAQSQKKMGEVAEAIKTLHMAMNLPGMRRSRASSKSKHRTEVDASHRLSIFLELVEVHRLNGEQHEAAKVLQDAIHEFSGTCEELRVTIANADLALAQGDTDRALSMLRNVTTEQPYFIEAKEKMADIYLKHRKEKMLYITCYREIAERMPSPRSFLLLGDAYMNIQEPEEAIVAYEQALNQNPKDGTLARKIGKALVKTHNYSKAITYYEAALKSGQQNCLCYDLAELLLRLKLYEKAEKVLQHSLAHEPVSELSALMVDGRSQVLLAKVYSKMERPSDAIAALQQARELQARILKRVQMEQPDAVPSQKHFAAEICAEIAKHSAAQRDYEKAITFYREALVHCETDSKIMLELAQLYLAQEDLDASLRHCALLLQRDQDNEPATMLMADLMFRKQDYEQAVYHLQQLLDRKPDNFMTLSRLIDLLRRCGKLEDVPRFFLMAEKHNSRTKLEPGFQYCKGLHFWYTGEPNDALRHFNKARKDSDWGQNALYNMIEICLNPDNETIGGEVFENLNGDL
IRESfinder result
IRESfinder score
0.461238639
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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