top of page
mmu_circGalnt1_1394
Basic information of circular RNA
PanCircBase ID:
mmu_circGalnt1_1394
mm39_Chr. Position ID:
chr18|24379106|24415293|+
Gene name:
Galnt1
Transcript:
ENSMUST00000000430.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,8468,18275,21478,23398,25536,26612,33894,36052
Genomic length:
36187
Exon/intron sizes in nt:
1,75,16,72,08,17,11,18,00,00,00,00,000
Flanking exon/introns:
chr18:24371542-24379106|chr18:24415293-24417766
Splice length:
1394
Other database IDs:
circAtlas: hsa-GALNT1_0019, CIRCpedia: HSA_CIRCpedia_156945
Human Ortholog IDs:
Mature spliced Sequence:
TTCTAGAGCTAGTGCAGAAACCTCATGAAGGTCCTGGAGAAATGGGGAAACCAGTCGTCATTCCGAAAGAGGATCAAGAAAAGATGAAAGAGATGTTTAAAATCAATCAGTTCAACTTAATGGCAAGTGAGATGATTGCACTCAACAGATCCTTACCAGATGTGAGGTTAGAGGGGTGTAAAACAAAGGTGTATCCAGATAACCTTCCTACAACAAGTGTGGTGATTGTTTTCCACAATGAGGCATGGAGCACACTTCTGCGAACAGTCCATAGTGTCATTAATCGCTCGCCAAGACATATGATAGAAGAGATTGTTCTTGTAGATGATGCCAGTGAAAGAGACTTTTTGAAAAGACCTCTAGAGAGTTATGTGAAAAAACTGAAAGTGCCGGTTCATGTAATTCGAATGGAGCAGCGCTCTGGGTTGATCAGAGCTAGATTGAAAGGAGCTGCTGTGTCCAGAGGCCAAGTGATCACCTTCTTAGATGCTCACTGTGAATGCACCGCAGGGTGGCTGGAGCCTCTGTTGGCCCGGATCAAACATGACAGGAGGACAGTGGTGTGTCCTATCATCGACGTGATCAGTGATGACACTTTCGAGTACATGGCGGGCTCTGACATGACCTATGGTGGCTTCAACTGGAAGCTCAATTTTCGTTGGTATCCTGTTCCCCAGCGAGAAATGGACAGAAGGAAAGGTGACAGGACTCTTCCTGTCAGAACACCTACAATGGCTGGAGGCCTTTTTTCAATAGACAGAGATTACTTTCAGGAAATTGGAACATACGATGCTGGAATGGATATTTGGGGAGGAGAAAACCTAGAAATTTCATTTAGGATTTGGCAGTGTGGAGGAACTTTGGAAATAGTGACATGCTCCCATGTTGGTCATGTGTTTCGGAAAGCTACACCTTACACATTTCCAGGAGGGACAGGGCAGATTATCAATAAGAATAACAGGCGGCTTGCAGAAGTATGGATGGATGAATTCAAGAATTTCTTCTATATAATTTCTCCAGGTGTTACAAAGGTAGATTATGGAGATATATCATCAAGACTTGGCCTAAGACGTAAACTACAATGCAAACCTTTCTCTTGGTACCTAGAAAATATTTACCCTGATTCTCAAATTCCTCGTCACTATTTCTCATTGGGAGAGATACGAAATGTGGAAACAAATCAGTGTCTAGATAACATGGCTAGAAAAGAGAATGAAAAGGTTGGAATCTTTAATTGTCATGGTATGGGAGGTAATCAGGTTTTCTCCTACACTGCCAACAAAGAAATTAGAACAGACGACCTTTGTTTGGACGTTTCCAAACTTAATGGCCCAGTCACCATGCTCAAATGCCACCACCTAAAAGGCAACCAGCTCTGGGAGTATGACCCAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACGACCTTTGTTTGGACG
58.42
TCCCCATTTCTCCAGGACCT
59.88
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAATGGCCCAGTCACCATGC
60.4
TCTTTCGGAATGACGACTGGT
59.38
140
PCR template sequence:
AGACGACCTTTGTTTGGACGTTTCCAAACTTAATGGCCCAGTCACCATGCTCAAATGCCACCACCTAAAAGGCAACCAGCTCTGGGAGTATGACCCAGTGTTCTAGAGCTAGTGCAGAAACCTCATGAAGGTCCTGGAGAAATGGGGAAACCAGTCGTCATTCCGAAAGAGGATCAAGAAAAGATGAAAGAGATGTTTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-34c-5p(1), mmu-miR-33-5p(1), mmu-miR-339-5p(1), mmu-miR-381-3p(1), mmu-miR-128-3p(1), mmu-miR-136-5p(1), mmu-miR-382-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-425-5p(1), mmu-miR-34b-5p(1), mmu-miR-301a-3p(1), mmu-miR-325-3p(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTATGACCCAGTGTTCTAGAGCTAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGALNT1_1394_ORF_1
0.7669
0.072667694
0.998018619
1359
ORF sequence:
ATGGGGAAACCAGTCGTCATTCCGAAAGAGGATCAAGAAAAGATGAAAGAGATGTTTAAAATCAATCAGTTCAACTTAATGGCAAGTGAGATGATTGCACTCAACAGATCCTTACCAGATGTGAGGTTAGAGGGGTGTAAAACAAAGGTGTATCCAGATAACCTTCCTACAACAAGTGTGGTGATTGTTTTCCACAATGAGGCATGGAGCACACTTCTGCGAACAGTCCATAGTGTCATTAATCGCTCGCCAAGACATATGATAGAAGAGATTGTTCTTGTAGATGATGCCAGTGAAAGAGACTTTTTGAAAAGACCTCTAGAGAGTTATGTGAAAAAACTGAAAGTGCCGGTTCATGTAATTCGAATGGAGCAGCGCTCTGGGTTGATCAGAGCTAGATTGAAAGGAGCTGCTGTGTCCAGAGGCCAAGTGATCACCTTCTTAGATGCTCACTGTGAATGCACCGCAGGGTGGCTGGAGCCTCTGTTGGCCCGGATCAAACATGACAGGAGGACAGTGGTGTGTCCTATCATCGACGTGATCAGTGATGACACTTTCGAGTACATGGCGGGCTCTGACATGACCTATGGTGGCTTCAACTGGAAGCTCAATTTTCGTTGGTATCCTGTTCCCCAGCGAGAAATGGACAGAAGGAAAGGTGACAGGACTCTTCCTGTCAGAACACCTACAATGGCTGGAGGCCTTTTTTCAATAGACAGAGATTACTTTCAGGAAATTGGAACATACGATGCTGGAATGGATATTTGGGGAGGAGAAAACCTAGAAATTTCATTTAGGATTTGGCAGTGTGGAGGAACTTTGGAAATAGTGACATGCTCCCATGTTGGTCATGTGTTTCGGAAAGCTACACCTTACACATTTCCAGGAGGGACAGGGCAGATTATCAATAAGAATAACAGGCGGCTTGCAGAAGTATGGATGGATGAATTCAAGAATTTCTTCTATATAATTTCTCCAGGTGTTACAAAGGTAGATTATGGAGATATATCATCAAGACTTGGCCTAAGACGTAAACTACAATGCAAACCTTTCTCTTGGTACCTAGAAAATATTTACCCTGATTCTCAAATTCCTCGTCACTATTTCTCATTGGGAGAGATACGAAATGTGGAAACAAATCAGTGTCTAGATAACATGGCTAGAAAAGAGAATGAAAAGGTTGGAATCTTTAATTGTCATGGTATGGGAGGTAATCAGGTTTTCTCCTACACTGCCAACAAAGAAATTAGAACAGACGACCTTTGTTTGGACGTTTCCAAACTTAATGGCCCAGTCACCATGCTCAAATGCCACCACCTAAAAGGCAACCAGCTCTGGGAGTATGACCCAGTGTTCTAG
Peptide sequence:
MGKPVVIPKEDQEKMKEMFKINQFNLMASEMIALNRSLPDVRLEGCKTKVYPDNLPTTSVVIVFHNEAWSTLLRTVHSVINRSPRHMIEEIVLVDDASERDFLKRPLESYVKKLKVPVHVIRMEQRSGLIRARLKGAAVSRGQVITFLDAHCECTAGWLEPLLARIKHDRRTVVCPIIDVISDDTFEYMAGSDMTYGGFNWKLNFRWYPVPQREMDRRKGDRTLPVRTPTMAGGLFSIDRDYFQEIGTYDAGMDIWGGENLEISFRIWQCGGTLEIVTCSHVGHVFRKATPYTFPGGTGQIINKNNRRLAEVWMDEFKNFFYIISPGVTKVDYGDISSRLGLRRKLQCKPFSWYLENIYPDSQIPRHYFSLGEIRNVETNQCLDNMARKENEKVGIFNCHGMGGNQVFSYTANKEIRTDDLCLDVSKLNGPVTMLKCHHLKGNQLWEYDPVF
IRESfinder result
IRESfinder score
0.518635849
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page