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mmu_circReck_1449
Basic information of circular RNA
PanCircBase ID:
mmu_circReck_1449
mm39_Chr. Position ID:
chr4|43911931|43930315|+
Gene name:
Reck
Transcript:
ENSMUST00000128463.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
8,9,10,11,12,13,14,15
Exon/intron offsets:
0,1853,6382,10880,13129,15214,16345,18261
Genomic length:
18384
Exon/intron sizes in nt:
1,98,26,81,80,21,31,37,00,00,00,000
Flanking exon/introns:
chr4:43909613-43911931|chr4:43930315-43930575
Splice length:
1449
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGGGCTCGGTGTGCTGCAGTTACGCAGGCCATCACACCAACTGCCGAGAATTCTGTCAAGCCATTTTTCGAACAGACTCTTCTCCTGGGCCATCTCAGATCAAAGCAGTGGAAAATTATTGTGCCTCTATCAGTCCACAGTTGATACACTGTGTGAATAATTACACCCAGTCTTATCCAATGAGAAACCCAACTGATAGTTTATATTGCTGTGACAGAGCTGAAGACCATGCTTGCCAAAACGCCTGCAAGAGAATTCTAATGTCTAAGAAAACAGAAATGGAGATTGTTGATGGTCTCATTGAGGGTTGTAAGACCCAGCCCTTGCCTCAAGATCCTCTTTGGCAGTGTTTTCTCGAAAGCTCACAGTCGGTTCACCCTGGAGTCACTGTGCACCCTCCTCCCTCAACTGGCCTCGACGGGGCCAAATTGCACTGTTGCTCTAAAGCAAACACTTCAACCTGTAGGGAACTGTGCACCAAACTTTATAGCATGAGCTGGGGAAATACACAGAGTTGGCAAGAGTTTGACCGCATCTGTGAGTATAATCCGGTGGAAGTGTCCATGCTGACGTGTCTGGCTGATGTCCGGGAGCCTTGCCAGTTGGGCTGTACAAACCTGACTTACTGTACAAACTTTAACAACAGGCCAACAGAACTGTTCAGGAGCTGCACGGCTCAGTCTGACCAGGGGGCCATGAGTGACATGAAGCTGTGGGAGAAGGGGAGCATCAAGATGCCCTTCATCAGCATCCCTGTCCTAGACATCAAGACCTGCCAGCCAGAGATGTGGAAGGCCGTGGCCTGCTCCCTGCAGATCAAGCCGTGCCATAGCAAATCCCGAGGCAGTATTATCTGCAAATCAGATTGTGTAGAGATTCTCAAGAAATGTGGAGACCAGAATAAATTCCCTGAAGAACACACAGCTGAAAGTATCTGTGAGTTTCTGTCCCCTGCAGATGACCTGGAGAGCTGTATCCCTCTGGACACGTACCTCAGGCCAAGTGCTTTAGGAAACATCATAGAAGAAGTGACTCACCCCTGTAACCCAAACCCCTGCCCAGCCAACGAGCTCTGTGAAGTGAACCGGAAGGGGTGTCCGTCTGCAGATCCCTGCCTTCCATACTCCTGTGTTCAAGGCTGCAAATTGGGAGAAGCTTCTGACTTCATCGTCCGCCAGGGGACACTGATCCAGGTGCCGTCCTCTGCAGGGGAAGTTGGTTGCTACAAGATCTGTTCCTGTGGACAAAGTGGCCTCTTGGAAAACTGTATGGAAATGCACTGTATCGACCTCCAGAAGTCTTGTATTGTCGGAGGAAAAAGAAAAAGCCACGGAACATCCTTTACTATTGACTGCAATGTCTGTTCTTGTTTTGCGGGTAATTTAGTGTGTTCCACCCGCCTGTGCCTCAGTGAGCACAGTTCAGACGACGACCGCCGCACCTTCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCAGTGAGCACAGTTCA
60.25
TGAGATGGCCCAGGAGAAGA
59.96
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCAGTGAGCACAGTTCA
60.25
TCTGAGATGGCCCAGGAGAA
59.96
144
PCR template sequence:
GACTGCAATGTCTGTTCTTGTTTTGCGGGTAATTTAGTGTGTTCCACCCGCCTGTGCCTCAGTGAGCACAGTTCAGACGACGACCGCCGCACCTTCACAGTGGGCTCGGTGTGCTGCAGTTACGCAGGCCATCACACCAACTGCCGAGAATTCTGTCAAGCCATTTTTCGAACAGACTCTTCTCCTGGGCCATCTCAGAT
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-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-let-7e-5p(1), mmu-miR-200c-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-136-5p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-183-5p(1), mmu-miR-301a-3p(1), mmu-miR-499-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGCACCTTCACAGTGGGCTCGGTGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRECK_1449_ORF_1
0.7686
0.143471264
0.999999918
2718
ORF sequence:
ATGAGAAACCCAACTGATAGTTTATATTGCTGTGACAGAGCTGAAGACCATGCTTGCCAAAACGCCTGCAAGAGAATTCTAATGTCTAAGAAAACAGAAATGGAGATTGTTGATGGTCTCATTGAGGGTTGTAAGACCCAGCCCTTGCCTCAAGATCCTCTTTGGCAGTGTTTTCTCGAAAGCTCACAGTCGGTTCACCCTGGAGTCACTGTGCACCCTCCTCCCTCAACTGGCCTCGACGGGGCCAAATTGCACTGTTGCTCTAAAGCAAACACTTCAACCTGTAGGGAACTGTGCACCAAACTTTATAGCATGAGCTGGGGAAATACACAGAGTTGGCAAGAGTTTGACCGCATCTGTGAGTATAATCCGGTGGAAGTGTCCATGCTGACGTGTCTGGCTGATGTCCGGGAGCCTTGCCAGTTGGGCTGTACAAACCTGACTTACTGTACAAACTTTAACAACAGGCCAACAGAACTGTTCAGGAGCTGCACGGCTCAGTCTGACCAGGGGGCCATGAGTGACATGAAGCTGTGGGAGAAGGGGAGCATCAAGATGCCCTTCATCAGCATCCCTGTCCTAGACATCAAGACCTGCCAGCCAGAGATGTGGAAGGCCGTGGCCTGCTCCCTGCAGATCAAGCCGTGCCATAGCAAATCCCGAGGCAGTATTATCTGCAAATCAGATTGTGTAGAGATTCTCAAGAAATGTGGAGACCAGAATAAATTCCCTGAAGAACACACAGCTGAAAGTATCTGTGAGTTTCTGTCCCCTGCAGATGACCTGGAGAGCTGTATCCCTCTGGACACGTACCTCAGGCCAAGTGCTTTAGGAAACATCATAGAAGAAGTGACTCACCCCTGTAACCCAAACCCCTGCCCAGCCAACGAGCTCTGTGAAGTGAACCGGAAGGGGTGTCCGTCTGCAGATCCCTGCCTTCCATACTCCTGTGTTCAAGGCTGCAAATTGGGAGAAGCTTCTGACTTCATCGTCCGCCAGGGGACACTGATCCAGGTGCCGTCCTCTGCAGGGGAAGTTGGTTGCTACAAGATCTGTTCCTGTGGACAAAGTGGCCTCTTGGAAAACTGTATGGAAATGCACTGTATCGACCTCCAGAAGTCTTGTATTGTCGGAGGAAAAAGAAAAAGCCACGGAACATCCTTTACTATTGACTGCAATGTCTGTTCTTGTTTTGCGGGTAATTTAGTGTGTTCCACCCGCCTGTGCCTCAGTGAGCACAGTTCAGACGACGACCGCCGCACCTTCACAGTGGGCTCGGTGTGCTGCAGTTACGCAGGCCATCACACCAACTGCCGAGAATTCTGTCAAGCCATTTTTCGAACAGACTCTTCTCCTGGGCCATCTCAGATCAAAGCAGTGGAAAATTATTGTGCCTCTATCAGTCCACAGTTGATACACTGTGTGAATAATTACACCCAGTCTTATCCAATGAGAAACCCAACTGATAGTTTATATTGCTGTGACAGAGCTGAAGACCATGCTTGCCAAAACGCCTGCAAGAGAATTCTAATGTCTAAGAAAACAGAAATGGAGATTGTTGATGGTCTCATTGAGGGTTGTAAGACCCAGCCCTTGCCTCAAGATCCTCTTTGGCAGTGTTTTCTCGAAAGCTCACAGTCGGTTCACCCTGGAGTCACTGTGCACCCTCCTCCCTCAACTGGCCTCGACGGGGCCAAATTGCACTGTTGCTCTAAAGCAAACACTTCAACCTGTAGGGAACTGTGCACCAAACTTTATAGCATGAGCTGGGGAAATACACAGAGTTGGCAAGAGTTTGACCGCATCTGTGAGTATAATCCGGTGGAAGTGTCCATGCTGACGTGTCTGGCTGATGTCCGGGAGCCTTGCCAGTTGGGCTGTACAAACCTGACTTACTGTACAAACTTTAACAACAGGCCAACAGAACTGTTCAGGAGCTGCACGGCTCAGTCTGACCAGGGGGCCATGAGTGACATGAAGCTGTGGGAGAAGGGGAGCATCAAGATGCCCTTCATCAGCATCCCTGTCCTAGACATCAAGACCTGCCAGCCAGAGATGTGGAAGGCCGTGGCCTGCTCCCTGCAGATCAAGCCGTGCCATAGCAAATCCCGAGGCAGTATTATCTGCAAATCAGATTGTGTAGAGATTCTCAAGAAATGTGGAGACCAGAATAAATTCCCTGAAGAACACACAGCTGAAAGTATCTGTGAGTTTCTGTCCCCTGCAGATGACCTGGAGAGCTGTATCCCTCTGGACACGTACCTCAGGCCAAGTGCTTTAGGAAACATCATAGAAGAAGTGACTCACCCCTGTAACCCAAACCCCTGCCCAGCCAACGAGCTCTGTGAAGTGAACCGGAAGGGGTGTCCGTCTGCAGATCCCTGCCTTCCATACTCCTGTGTTCAAGGCTGCAAATTGGGAGAAGCTTCTGACTTCATCGTCCGCCAGGGGACACTGATCCAGGTGCCGTCCTCTGCAGGGGAAGTTGGTTGCTACAAGATCTGTTCCTGTGGACAAAGTGGCCTCTTGGAAAACTGTATGGAAATGCACTGTATCGACCTCCAGAAGTCTTGTATTGTCGGAGGAAAAAGAAAAAGCCACGGAACATCCTTTACTATTGACTGCAATGTCTGTTCTTGTTTTGCGGGTAATTTAGTGTGTTCCACCCGCCTGTGCCTCAGTGAGCACAGTTCAGACGACGACCGCCGCACCTTCACA
Peptide sequence:
MRNPTDSLYCCDRAEDHACQNACKRILMSKKTEMEIVDGLIEGCKTQPLPQDPLWQCFLESSQSVHPGVTVHPPPSTGLDGAKLHCCSKANTSTCRELCTKLYSMSWGNTQSWQEFDRICEYNPVEVSMLTCLADVREPCQLGCTNLTYCTNFNNRPTELFRSCTAQSDQGAMSDMKLWEKGSIKMPFISIPVLDIKTCQPEMWKAVACSLQIKPCHSKSRGSIICKSDCVEILKKCGDQNKFPEEHTAESICEFLSPADDLESCIPLDTYLRPSALGNIIEEVTHPCNPNPCPANELCEVNRKGCPSADPCLPYSCVQGCKLGEASDFIVRQGTLIQVPSSAGEVGCYKICSCGQSGLLENCMEMHCIDLQKSCIVGGKRKSHGTSFTIDCNVCSCFAGNLVCSTRLCLSEHSSDDDRRTFTVGSVCCSYAGHHTNCREFCQAIFRTDSSPGPSQIKAVENYCASISPQLIHCVNNYTQSYPMRNPTDSLYCCDRAEDHACQNACKRILMSKKTEMEIVDGLIEGCKTQPLPQDPLWQCFLESSQSVHPGVTVHPPPSTGLDGAKLHCCSKANTSTCRELCTKLYSMSWGNTQSWQEFDRICEYNPVEVSMLTCLADVREPCQLGCTNLTYCTNFNNRPTELFRSCTAQSDQGAMSDMKLWEKGSIKMPFISIPVLDIKTCQPEMWKAVACSLQIKPCHSKSRGSIICKSDCVEILKKCGDQNKFPEEHTAESICEFLSPADDLESCIPLDTYLRPSALGNIIEEVTHPCNPNPCPANELCEVNRKGCPSADPCLPYSCVQGCKLGEASDFIVRQGTLIQVPSSAGEVGCYKICSCGQSGLLENCMEMHCIDLQKSCIVGGKRKSHGTSFTIDCNVCSCFAGNLVCSTRLCLSEHSSDDDRRTFT
IRESfinder result
IRESfinder score
0.577905754
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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