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mmu_circGalnt2_1314
Basic information of circular RNA
PanCircBase ID:
mmu_circGalnt2_1314
mm39_Chr. Position ID:
chr8|125022096|125065308|+
Gene name:
Galnt2
Transcript:
ENSMUST00000034458.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,10157,28314,28634,28913,32734,34355,36651,37210,38917,41216,41904,43085
Genomic length:
43212
Exon/intron sizes in nt:
94,15,49,96,86,61,22,80,00,00,00,00,00,00,000
Flanking exon/introns:
chr8:124958388-125022096|chr8:125065308-125067557
Splice length:
1314
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_178150
Human Ortholog IDs:
Mature spliced Sequence:
GGTGACTGGAATGACATCGACTCCATTAAGAAGAAAGACCTTCACCACAGCAGAGGAGATGAGAAAGCACAGGGTGTGGAGACCCTCCCTCCAGGCAAAGTCCGGTGGCCAGACTTTAACCAGGAGGCATACGTTGGCGGTACAATGGTTCGCTCTGGGCAGGACCCGTACGCACGCAACAAGTTCAACCAGGTGGAGAGTGACAAGCTGCACATGGACAGAGGCATCCCCGACACCCGGCATGACCAGTGTCAGCGCAAGCAGTGGCGAGTGGACCTGCCAGCCACCAGCGTGGTGATCACATTCCACAATGAAGCCAGGTCGGCCCTGCTGCGGACGGTGGTCAGTGTCCTCAAGAGGAGTCCACCTCACCTCATCAAGGAGATAATCCTGGTGGATGACTACAGCAACGACCCTGAGGACGGGGCCCTCTTGGGGAAAATCGAGAAGGTGCGGGTCCTCAGAAATGACCGGAGAGAAGGTCTAATGCGCTCTCGGGTCCGGGGTGCCGACGCCGCCCAGGCCAAGGTCCTGACCTTCCTAGACAGTCACTGCGAGTGTAACGAGCGATGGCTGGAGCCACTCTTGGAGCGGGTTGCTGAGGACAGGACCCGAGTTGTATCCCCCATTATCGATGTCATTAACATGGATAATTTCCAGTATGTGGGCGCCTCTGCTGACCTCAAGGGTGGTTTTGACTGGAACTTGGTGTTCAAGTGGGATTACATGACACCAGAGCAGAGGCGATCCCGGCAGGGGAACCCAGTTGCCCCTATAAAAACTCCGATGATCGCTGGCGGCCTCTTCGTGATGGACAAGCTCTATTTTGAAGAGCTGGGGAAGTACGACATGATGATGGACGTGTGGGGAGGAGAGAACTTGGAGATCTCATTCCGAGTGTGGCAGTGTGGTGGCAGCCTGGAGATCATCCCGTGCAGCCGCGTGGGCCACGTGTTCCGGAAGCAGCATCCCTACACGTTCCCCGGTGGCAGCGGCACTGTCTTTGCCCGGAACACACGCCGGGCAGCTGAAGTCTGGATGGATGAGTACAAACATTTCTACTACGCAGCGGTGCCTTCTGCACGAAACGTGCCCTATGGGAATATTCAGAGCAGGCTGGAGCTCAGGAAAAAGCTGGGCTGCAAGCCCTTCAAGTGGTACCTGGACAACGTCTACCCGGAGCTGAGGGTTCCAGACCACCAGGACATAGCTTTCGGGGCCTTACAGCAGGGAACCAACTGCCTGGACACCTTGGGACACTTCGCGGATGGAGTTGTTGGAATTTATGAGTGTCACAACGCTGGAGGAAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACACTTCGCGGATGGAGTT
60.39
TCTCCACACCCTGTGCTTTC
59.89
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACACTTCGCGGATGGAGTT
60.39
CTCCACACCCTGTGCTTTCT
59.89
140
PCR template sequence:
CGGGGCCTTACAGCAGGGAACCAACTGCCTGGACACCTTGGGACACTTCGCGGATGGAGTTGTTGGAATTTATGAGTGTCACAACGCTGGAGGAAACCAGGGTGACTGGAATGACATCGACTCCATTAAGAAGAAAGACCTTCACCACAGCAGAGGAGATGAGAAAGCACAGGGTGTGGAGACCCTCCCTCCAGGCAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-296-5p(1), mmu-miR-122-5p(1), mmu-miR-339-5p(1), mmu-miR-214-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGAGGAAACCAGGGTGACTGGAATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGALNT2_1314_ORF_1
1.1448
0.486322658
0.999999946
2484
ORF sequence:
ATGGTTCGCTCTGGGCAGGACCCGTACGCACGCAACAAGTTCAACCAGGTGGAGAGTGACAAGCTGCACATGGACAGAGGCATCCCCGACACCCGGCATGACCAGTGTCAGCGCAAGCAGTGGCGAGTGGACCTGCCAGCCACCAGCGTGGTGATCACATTCCACAATGAAGCCAGGTCGGCCCTGCTGCGGACGGTGGTCAGTGTCCTCAAGAGGAGTCCACCTCACCTCATCAAGGAGATAATCCTGGTGGATGACTACAGCAACGACCCTGAGGACGGGGCCCTCTTGGGGAAAATCGAGAAGGTGCGGGTCCTCAGAAATGACCGGAGAGAAGGTCTAATGCGCTCTCGGGTCCGGGGTGCCGACGCCGCCCAGGCCAAGGTCCTGACCTTCCTAGACAGTCACTGCGAGTGTAACGAGCGATGGCTGGAGCCACTCTTGGAGCGGGTTGCTGAGGACAGGACCCGAGTTGTATCCCCCATTATCGATGTCATTAACATGGATAATTTCCAGTATGTGGGCGCCTCTGCTGACCTCAAGGGTGGTTTTGACTGGAACTTGGTGTTCAAGTGGGATTACATGACACCAGAGCAGAGGCGATCCCGGCAGGGGAACCCAGTTGCCCCTATAAAAACTCCGATGATCGCTGGCGGCCTCTTCGTGATGGACAAGCTCTATTTTGAAGAGCTGGGGAAGTACGACATGATGATGGACGTGTGGGGAGGAGAGAACTTGGAGATCTCATTCCGAGTGTGGCAGTGTGGTGGCAGCCTGGAGATCATCCCGTGCAGCCGCGTGGGCCACGTGTTCCGGAAGCAGCATCCCTACACGTTCCCCGGTGGCAGCGGCACTGTCTTTGCCCGGAACACACGCCGGGCAGCTGAAGTCTGGATGGATGAGTACAAACATTTCTACTACGCAGCGGTGCCTTCTGCACGAAACGTGCCCTATGGGAATATTCAGAGCAGGCTGGAGCTCAGGAAAAAGCTGGGCTGCAAGCCCTTCAAGTGGTACCTGGACAACGTCTACCCGGAGCTGAGGGTTCCAGACCACCAGGACATAGCTTTCGGGGCCTTACAGCAGGGAACCAACTGCCTGGACACCTTGGGACACTTCGCGGATGGAGTTGTTGGAATTTATGAGTGTCACAACGCTGGAGGAAACCAGGGTGACTGGAATGACATCGACTCCATTAAGAAGAAAGACCTTCACCACAGCAGAGGAGATGAGAAAGCACAGGGTGTGGAGACCCTCCCTCCAGGCAAAGTCCGGTGGCCAGACTTTAACCAGGAGGCATACGTTGGCGGTACAATGGTTCGCTCTGGGCAGGACCCGTACGCACGCAACAAGTTCAACCAGGTGGAGAGTGACAAGCTGCACATGGACAGAGGCATCCCCGACACCCGGCATGACCAGTGTCAGCGCAAGCAGTGGCGAGTGGACCTGCCAGCCACCAGCGTGGTGATCACATTCCACAATGAAGCCAGGTCGGCCCTGCTGCGGACGGTGGTCAGTGTCCTCAAGAGGAGTCCACCTCACCTCATCAAGGAGATAATCCTGGTGGATGACTACAGCAACGACCCTGAGGACGGGGCCCTCTTGGGGAAAATCGAGAAGGTGCGGGTCCTCAGAAATGACCGGAGAGAAGGTCTAATGCGCTCTCGGGTCCGGGGTGCCGACGCCGCCCAGGCCAAGGTCCTGACCTTCCTAGACAGTCACTGCGAGTGTAACGAGCGATGGCTGGAGCCACTCTTGGAGCGGGTTGCTGAGGACAGGACCCGAGTTGTATCCCCCATTATCGATGTCATTAACATGGATAATTTCCAGTATGTGGGCGCCTCTGCTGACCTCAAGGGTGGTTTTGACTGGAACTTGGTGTTCAAGTGGGATTACATGACACCAGAGCAGAGGCGATCCCGGCAGGGGAACCCAGTTGCCCCTATAAAAACTCCGATGATCGCTGGCGGCCTCTTCGTGATGGACAAGCTCTATTTTGAAGAGCTGGGGAAGTACGACATGATGATGGACGTGTGGGGAGGAGAGAACTTGGAGATCTCATTCCGAGTGTGGCAGTGTGGTGGCAGCCTGGAGATCATCCCGTGCAGCCGCGTGGGCCACGTGTTCCGGAAGCAGCATCCCTACACGTTCCCCGGTGGCAGCGGCACTGTCTTTGCCCGGAACACACGCCGGGCAGCTGAAGTCTGGATGGATGAGTACAAACATTTCTACTACGCAGCGGTGCCTTCTGCACGAAACGTGCCCTATGGGAATATTCAGAGCAGGCTGGAGCTCAGGAAAAAGCTGGGCTGCAAGCCCTTCAAGTGGTACCTGGACAACGTCTACCCGGAGCTGAGGGTTCCAGACCACCAGGACATAGCTTTCGGGGCCTTACAGCAGGGAACCAACTGCCTGGACACCTTGGGACACTTCGCGGATGGAGTTGTTGGAATTTATGAGTGTCACAACGCTGGAGGAAACCAG
Peptide sequence:
MVRSGQDPYARNKFNQVESDKLHMDRGIPDTRHDQCQRKQWRVDLPATSVVITFHNEARSALLRTVVSVLKRSPPHLIKEIILVDDYSNDPEDGALLGKIEKVRVLRNDRREGLMRSRVRGADAAQAKVLTFLDSHCECNERWLEPLLERVAEDRTRVVSPIIDVINMDNFQYVGASADLKGGFDWNLVFKWDYMTPEQRRSRQGNPVAPIKTPMIAGGLFVMDKLYFEELGKYDMMMDVWGGENLEISFRVWQCGGSLEIIPCSRVGHVFRKQHPYTFPGGSGTVFARNTRRAAEVWMDEYKHFYYAAVPSARNVPYGNIQSRLELRKKLGCKPFKWYLDNVYPELRVPDHQDIAFGALQQGTNCLDTLGHFADGVVGIYECHNAGGNQGDWNDIDSIKKKDLHHSRGDEKAQGVETLPPGKVRWPDFNQEAYVGGTMVRSGQDPYARNKFNQVESDKLHMDRGIPDTRHDQCQRKQWRVDLPATSVVITFHNEARSALLRTVVSVLKRSPPHLIKEIILVDDYSNDPEDGALLGKIEKVRVLRNDRREGLMRSRVRGADAAQAKVLTFLDSHCECNERWLEPLLERVAEDRTRVVSPIIDVINMDNFQYVGASADLKGGFDWNLVFKWDYMTPEQRRSRQGNPVAPIKTPMIAGGLFVMDKLYFEELGKYDMMMDVWGGENLEISFRVWQCGGSLEIIPCSRVGHVFRKQHPYTFPGGSGTVFARNTRRAAEVWMDEYKHFYYAAVPSARNVPYGNIQSRLELRKKLGCKPFKWYLDNVYPELRVPDHQDIAFGALQQGTNCLDTLGHFADGVVGIYECHNAGGNQ
IRESfinder result
IRESfinder score
0.273811039
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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