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mmu_circAbcc5_1644
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc5_1644
mm39_Chr. Position ID:
chr16|20195260|20218789|-
Gene name:
Abcc5
Transcript:
ENSMUST00000079158.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,1936,2131,12858,15940,19504,20469,22302,22964,23295
Genomic length:
23529
Exon/intron sizes in nt:
2,04,73,12,57,23,57,10,00,00,00,00,00,000
Flanking exon/introns:
chr16:20193884-20195260|chr16:20218789-20223315
Splice length:
1644
Other database IDs:
circAtlas: mmu-Abcc5_0039
Human Ortholog IDs:
Mature spliced Sequence:
GCCTTCGTGGTGAAGCACCTCTTGGAGTACACCCAGGCAACAGAGTCTAACCTGCAGTACAGCTTGCTGTTAGTGTTAGGCCTACTCCTGACAGAAGTTGTACGCTCCTGGTCACTTGCACTGACTTGGGCATTGAATTATCGAACTGGTGTCCGGTTGCGGGGGGCTATCCTGACTATGGCATTCAAGAAGATCCTGAAGTTAAAGAACATTAAAGAAAAGTCCCTAGGGGAGCTCATCAATATCTGCTCCAATGATGGGCAAAGGATGTTTGAGGCAGCCGCTGTGGGCAGCTTGCTGGCTGGAGGACCTGTTGTTGCCATCTTGGGCATGATTTATAATGTAATCATCCTAGGACCCACGGGCTTCCTGGGATCAGCGGTTTTTATCCTCTTTTATCCAGCAATGATGTTCGTGTCACGGCTAACTGCATATTTCAGGAGAAAGTGTGTAGCTGCCACAGATGACCGTGTCCAGAAGATGAATGAAGTTCTTACCTACATTAAATTCATTAAAATGTATGCCTGGGTCAAAGCGTTTTCTCAGTGTGTGCAAAAAATCCGAGAGGAGGAACGTCGGATATTGGAGAAAGCCGGGTACTTTCAGAGCATCACTGTTGGAGTGGCTCCTATTGTGGTAGTGATCGCCAGTGTGGTGACGTTCTCCGTTCACATGACCCTGGGCTTCCATCTGACTGCGGCACAGGCCTTCACAGTGGTGACTGTCTTCAATTCCATGACTTTTGCTTTAAAAGTAACACCATTCTCAGTGAAGTCCCTCTCTGAAGCATCAGTGGCTGTTGACAGATTTAAGAGTTTGTTTCTAATGGAAGAGGTTCACATGATAAAGAACAAACCGGCCAGTCCTCACATCAAGATAGAGATGAAAAATGCCACCTTGGCATGGGACTCCTCCCACTCCAGTATACAGAACTCGCCCAAGCTGACCCCCAAAATGAAAAAAGACAAGAGGGCTACCAGGGGCAAGAAAGAGAAGTCGAGGCAGCTGCAACACACTGAGCACCAGGCGGTGCTGGCAGAACAGAAAGGACACCTCCTCCTGGACAGTGACGAGCGGCCCAGCCCGGAAGAGGAAGAAGGCAAGCAGATCCACACAGGGAGCCTGCGCCTGCAGAGGACACTGTACAACATTGACTTAGAAATTGAAGAGGGCAAACTGGTTGGAATCTGCGGCAGTGTGGGAAGTGGAAAAACCTCTCTCGTTTCAGCCATTTTAGGCCAGATGACGCTTTTGGAGGGCAGCATTGCCGTCAGTGGGACCTTTGCTTATGTGGCCCAACAGGCCTGGATTCTCAATGCCACTCTGAGAGACAACATTCTCTTTGGGAAGGAATTTGATGAAGAGAGATACAACTCAGTGCTGAATAGCTGCTGCCTGCGGCCTGACTTGGCCATTCTCCCCAACAGCGACCTGACTGAGATTGGAGAGCGAGGAGCCAACCTGAGTGGTGGACAGCGCCAGAGAATCAGCCTTGCTAGAGCCTTGTACAGTGATAGAAGCATCTACATCCTGGATGACCCCCTCAGTGCCTTAGATGCCCATGTGGGCAACCACATCTTCAACAGTGCTATCCGGAAGCGCCTCAAGTCTAAGACGGTTCTGTTTGTTACACACCAGTTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTAGATGCCCATGTGG
60.11
CTGTTGCCTGGGTGTACTCC
60.32
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTAGATGCCCATGTGG
60.11
ACTCTGTTGCCTGGGTGTAC
59.6
143
PCR template sequence:
CAGTGCCTTAGATGCCCATGTGGGCAACCACATCTTCAACAGTGCTATCCGGAAGCGCCTCAAGTCTAAGACGGTTCTGTTTGTTACACACCAGTTACAGGCCTTCGTGGTGAAGCACCTCTTGGAGTACACCCAGGCAACAGAGTCTAACCTGCAGTACAGCTTGCTGTTAGTGTTAGGCCTACTCCTGACAGAAGTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-130a-3p(1), mmu-miR-152-3p(1), mmu-miR-216a-5p(1), mmu-miR-495-3p(1), mmu-miR-149-5p(1), mmu-miR-130b-3p(1), mmu-miR-721(1), mmu-miR-125b-1-3p(1), mmu-miR-324-3p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACACCAGTTACAGGCCTTCGTGGTGA
siRNA sets
ACGAAGGCCTGTAACTGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC5_1644_ORF_1
1.2177
0.276610923
0.999999999
3111
ORF sequence:
ATGGCATTCAAGAAGATCCTGAAGTTAAAGAACATTAAAGAAAAGTCCCTAGGGGAGCTCATCAATATCTGCTCCAATGATGGGCAAAGGATGTTTGAGGCAGCCGCTGTGGGCAGCTTGCTGGCTGGAGGACCTGTTGTTGCCATCTTGGGCATGATTTATAATGTAATCATCCTAGGACCCACGGGCTTCCTGGGATCAGCGGTTTTTATCCTCTTTTATCCAGCAATGATGTTCGTGTCACGGCTAACTGCATATTTCAGGAGAAAGTGTGTAGCTGCCACAGATGACCGTGTCCAGAAGATGAATGAAGTTCTTACCTACATTAAATTCATTAAAATGTATGCCTGGGTCAAAGCGTTTTCTCAGTGTGTGCAAAAAATCCGAGAGGAGGAACGTCGGATATTGGAGAAAGCCGGGTACTTTCAGAGCATCACTGTTGGAGTGGCTCCTATTGTGGTAGTGATCGCCAGTGTGGTGACGTTCTCCGTTCACATGACCCTGGGCTTCCATCTGACTGCGGCACAGGCCTTCACAGTGGTGACTGTCTTCAATTCCATGACTTTTGCTTTAAAAGTAACACCATTCTCAGTGAAGTCCCTCTCTGAAGCATCAGTGGCTGTTGACAGATTTAAGAGTTTGTTTCTAATGGAAGAGGTTCACATGATAAAGAACAAACCGGCCAGTCCTCACATCAAGATAGAGATGAAAAATGCCACCTTGGCATGGGACTCCTCCCACTCCAGTATACAGAACTCGCCCAAGCTGACCCCCAAAATGAAAAAAGACAAGAGGGCTACCAGGGGCAAGAAAGAGAAGTCGAGGCAGCTGCAACACACTGAGCACCAGGCGGTGCTGGCAGAACAGAAAGGACACCTCCTCCTGGACAGTGACGAGCGGCCCAGCCCGGAAGAGGAAGAAGGCAAGCAGATCCACACAGGGAGCCTGCGCCTGCAGAGGACACTGTACAACATTGACTTAGAAATTGAAGAGGGCAAACTGGTTGGAATCTGCGGCAGTGTGGGAAGTGGAAAAACCTCTCTCGTTTCAGCCATTTTAGGCCAGATGACGCTTTTGGAGGGCAGCATTGCCGTCAGTGGGACCTTTGCTTATGTGGCCCAACAGGCCTGGATTCTCAATGCCACTCTGAGAGACAACATTCTCTTTGGGAAGGAATTTGATGAAGAGAGATACAACTCAGTGCTGAATAGCTGCTGCCTGCGGCCTGACTTGGCCATTCTCCCCAACAGCGACCTGACTGAGATTGGAGAGCGAGGAGCCAACCTGAGTGGTGGACAGCGCCAGAGAATCAGCCTTGCTAGAGCCTTGTACAGTGATAGAAGCATCTACATCCTGGATGACCCCCTCAGTGCCTTAGATGCCCATGTGGGCAACCACATCTTCAACAGTGCTATCCGGAAGCGCCTCAAGTCTAAGACGGTTCTGTTTGTTACACACCAGTTACAGGCCTTCGTGGTGAAGCACCTCTTGGAGTACACCCAGGCAACAGAGTCTAACCTGCAGTACAGCTTGCTGTTAGTGTTAGGCCTACTCCTGACAGAAGTTGTACGCTCCTGGTCACTTGCACTGACTTGGGCATTGAATTATCGAACTGGTGTCCGGTTGCGGGGGGCTATCCTGACTATGGCATTCAAGAAGATCCTGAAGTTAAAGAACATTAAAGAAAAGTCCCTAGGGGAGCTCATCAATATCTGCTCCAATGATGGGCAAAGGATGTTTGAGGCAGCCGCTGTGGGCAGCTTGCTGGCTGGAGGACCTGTTGTTGCCATCTTGGGCATGATTTATAATGTAATCATCCTAGGACCCACGGGCTTCCTGGGATCAGCGGTTTTTATCCTCTTTTATCCAGCAATGATGTTCGTGTCACGGCTAACTGCATATTTCAGGAGAAAGTGTGTAGCTGCCACAGATGACCGTGTCCAGAAGATGAATGAAGTTCTTACCTACATTAAATTCATTAAAATGTATGCCTGGGTCAAAGCGTTTTCTCAGTGTGTGCAAAAAATCCGAGAGGAGGAACGTCGGATATTGGAGAAAGCCGGGTACTTTCAGAGCATCACTGTTGGAGTGGCTCCTATTGTGGTAGTGATCGCCAGTGTGGTGACGTTCTCCGTTCACATGACCCTGGGCTTCCATCTGACTGCGGCACAGGCCTTCACAGTGGTGACTGTCTTCAATTCCATGACTTTTGCTTTAAAAGTAACACCATTCTCAGTGAAGTCCCTCTCTGAAGCATCAGTGGCTGTTGACAGATTTAAGAGTTTGTTTCTAATGGAAGAGGTTCACATGATAAAGAACAAACCGGCCAGTCCTCACATCAAGATAGAGATGAAAAATGCCACCTTGGCATGGGACTCCTCCCACTCCAGTATACAGAACTCGCCCAAGCTGACCCCCAAAATGAAAAAAGACAAGAGGGCTACCAGGGGCAAGAAAGAGAAGTCGAGGCAGCTGCAACACACTGAGCACCAGGCGGTGCTGGCAGAACAGAAAGGACACCTCCTCCTGGACAGTGACGAGCGGCCCAGCCCGGAAGAGGAAGAAGGCAAGCAGATCCACACAGGGAGCCTGCGCCTGCAGAGGACACTGTACAACATTGACTTAGAAATTGAAGAGGGCAAACTGGTTGGAATCTGCGGCAGTGTGGGAAGTGGAAAAACCTCTCTCGTTTCAGCCATTTTAGGCCAGATGACGCTTTTGGAGGGCAGCATTGCCGTCAGTGGGACCTTTGCTTATGTGGCCCAACAGGCCTGGATTCTCAATGCCACTCTGAGAGACAACATTCTCTTTGGGAAGGAATTTGATGAAGAGAGATACAACTCAGTGCTGAATAGCTGCTGCCTGCGGCCTGACTTGGCCATTCTCCCCAACAGCGACCTGACTGAGATTGGAGAGCGAGGAGCCAACCTGAGTGGTGGACAGCGCCAGAGAATCAGCCTTGCTAGAGCCTTGTACAGTGATAGAAGCATCTACATCCTGGATGACCCCCTCAGTGCCTTAGATGCCCATGTGGGCAACCACATCTTCAACAGTGCTATCCGGAAGCGCCTCAAGTCTAAGACGGTTCTGTTTGTTACACACCAGTTACAG
Peptide sequence:
MAFKKILKLKNIKEKSLGELINICSNDGQRMFEAAAVGSLLAGGPVVAILGMIYNVIILGPTGFLGSAVFILFYPAMMFVSRLTAYFRRKCVAATDDRVQKMNEVLTYIKFIKMYAWVKAFSQCVQKIREEERRILEKAGYFQSITVGVAPIVVVIASVVTFSVHMTLGFHLTAAQAFTVVTVFNSMTFALKVTPFSVKSLSEASVAVDRFKSLFLMEEVHMIKNKPASPHIKIEMKNATLAWDSSHSSIQNSPKLTPKMKKDKRATRGKKEKSRQLQHTEHQAVLAEQKGHLLLDSDERPSPEEEEGKQIHTGSLRLQRTLYNIDLEIEEGKLVGICGSVGSGKTSLVSAILGQMTLLEGSIAVSGTFAYVAQQAWILNATLRDNILFGKEFDEERYNSVLNSCCLRPDLAILPNSDLTEIGERGANLSGGQRQRISLARALYSDRSIYILDDPLSALDAHVGNHIFNSAIRKRLKSKTVLFVTHQLQAFVVKHLLEYTQATESNLQYSLLLVLGLLLTEVVRSWSLALTWALNYRTGVRLRGAILTMAFKKILKLKNIKEKSLGELINICSNDGQRMFEAAAVGSLLAGGPVVAILGMIYNVIILGPTGFLGSAVFILFYPAMMFVSRLTAYFRRKCVAATDDRVQKMNEVLTYIKFIKMYAWVKAFSQCVQKIREEERRILEKAGYFQSITVGVAPIVVVIASVVTFSVHMTLGFHLTAAQAFTVVTVFNSMTFALKVTPFSVKSLSEASVAVDRFKSLFLMEEVHMIKNKPASPHIKIEMKNATLAWDSSHSSIQNSPKLTPKMKKDKRATRGKKEKSRQLQHTEHQAVLAEQKGHLLLDSDERPSPEEEEGKQIHTGSLRLQRTLYNIDLEIEEGKLVGICGSVGSGKTSLVSAILGQMTLLEGSIAVSGTFAYVAQQAWILNATLRDNILFGKEFDEERYNSVLNSCCLRPDLAILPNSDLTEIGERGANLSGGQRQRISLARALYSDRSIYILDDPLSALDAHVGNHIFNSAIRKRLKSKTVLFVTHQLQ
IRESfinder result
IRESfinder score
0.477302164
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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