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mmu_circSptan1_2518
Basic information of circular RNA
PanCircBase ID:
mmu_circSptan1_2518
mm39_Chr. Position ID:
chr2|29892242|29911335|+
Gene name:
Sptan1
Transcript:
ENSMUST00000113719.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
21
Exon/intron indexes:
23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43
Exon/intron offsets:
0,1084,1443,2274,4392,5263,5612,5843,8468,8679,8955,11215,11445,11927,13358,13703,14967,16131,17696,18197,18960
Genomic length:
19093
Exon/intron sizes in nt:
1,99,10,52,43,64,89,21,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:29890074-29892242|chr2:29911335-29912451
Splice length:
2518
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATATCAGTCTCTGCTGGAACTGGGTGAGAAGAGAAAAGGCATGTTGGAGAAGAGTTGCAAGAAGTTCATGTTGTTCCGGGAAGCAAACGAGTTACAGCAGTGGATCACTGAGAAGGAGGCTGCTCTAACCAATGAGGAGGTTGGCGCTGACTTGGAGCAGGTTGAGGTGCTGCAGAAGAAGTTTGATGACTTCCAGAAGGATCTGAAAGCCAATGAGTCTCGGCTGAAGGACATTAACAAAGTAGCAGAAGACCTGGAGTCTGAAGGTCTGATGGCAGAGGAAGTGCAAGCTGTGCAGCAGCAGGAGGTGTATGGTGCGATGCCCAGGGATGAAGCAGATTCCAAGACGGCCTCCCCATGGAAGTCTGCTCGACTGATGGTCCATACAGTGGCTACCTTCAACTCCATCAAGGAGCTGAATGAGCGTTGGCGGTCCCTGCAACAGCTGGCTGAGGAACGTAGCCAGCTCTTGGGCAGTGCACACGAAGTACAGAGGTTTCACAGAGATGCTGATGAAACTAAAGAATGGATTGAAGAGAAGAATCAGGCTCTGAACACAGACAACTATGGCCATGATTTAGCTAGTGTCCAGGCCCTGCAGCGCAAACATGAAGGCTTTGAGAGGGACCTTGCAGCTCTTGGTGACAAGGTGAATTCCCTTGGGGAAACAGCCCAAAGGCTGATCCAGTCCCACCCTGAATCTGCAGAGGACTTAAAGGAAAAGTGCACAGAGTTAAACCAGGCCTGGACCAGCCTAGGGAAGCGTGCAGACCAGCGCAAGGCCAAATTGGGTGACTCCCATGATCTGCAGCGCTTCCTTAGCGATTTCCGGGACCTCATGTCTTGGATCAATGGAATACGAGGGTTGGTATCTTCAGATGAACTAGCCAAGGACGTCACTGGAGCTGAGGCTTTGCTGGAGCGACACCAGGAACACCGGACAGAAATTGATGCCAGGGCTGGCACTTTCCAGGCATTTGAGCAGTTTGGGCAGCAGCTGTTAGCTCACGGGCACTATGCCAGCCCGGAGATCAAAGAGAAACTTGATATTCTTGACCAGGAGCGCACAGACCTGGAGAAGGCCTGGGTCCAGCGCAGGATGATGCTGGACCACTGCCTGGAGTTGCAGCTGTTCCATCGGGACTGTGAACAAGCAGAAAACTGGATGGCTGCCCGGGAGGCCTTCCTAAACACAGAAGACAAAGGAGACTCGCTGGACAGTGTGGAGGCACTGATCAAAAAACATGAAGACTTTGACAAAGCTATCAATGTCCAGGAAGAAAAGATAGCTGCCCTGCAGGCCTTTGCCGACCAGCTCATTGCCGTTGACCACTATGCCAAGGGAGACATTGCAAACCGACGCAATGAGGTCCTTGACCGGTGGCGCCGCCTAAAAGCCCAGATGATTGAAAAAAGGTCAAAACTTGGAGAATCTCAAACACTTCAGCAGTTCAGCCGGGATGTGGATGAGATTGAAGCCTGGATCAGTGAGAAGTTACAGACAGCCAGTGATGAGTCATACAAGGACCCCACCAACATCCAGCTTTCCAAGCTGTTGAGCAAGCACCAGAAGCACCAAGCCTTTGAGGCAGAACTGCACGCCAATGCTGACCGAATCCGTGGAGTTATCGACATGGGCAACTCCCTCATTGAGCGTGGGGCCTGTGCTGGCAGTGAGGATGCTGTCAAGGCCCGCCTGGCTGCCCTTGCAGACCAGTGGCAGTTCCTGGTGCAGAAATCAGCTGAGAAGAGCCAGAAGCTAAAAGAGGCAAATAAGCAGCAGAACTTCAACACTGGAATCAAAGACTTTGACTTCTGGCTCTCTGAGGTGGAGGCTCTCCTGGCATCGGAAGATTATGGCAAAGACCTGGCTTCTGTGAACAACTTGCTGAAAAAGCATCAGCTGCTAGAGGCAGACATCTCGGCCCACGAGGATCGTCTGAAGGACCTGAACAGCCAGGCTGACAGCCTGATGACTAGCAGTGCCTTCGACACCTCCCAAGTGAAAGAGAAGCGGGACACCATCAATGGACGCTTCCAGAAGATCAAGAGCATGGCCACCTCCCGAAGAGCGAAACTGAGCGAGTCCCACCGCCTGCACCAGTTCTTCCGGGACATGGACGACGAGGAGTCCTGGATCAAGGAGAAGAAGTTGTTAGTGAGCTCTGAGGACTATGGCAGAGACCTCACTGGTGTTCAGAATCTGAGGAAGAAACACAAGCGGCTAGAAGCTGAACTGGCTGCACATGAACCCGCCATTCAGGGTGTCCTGGACACTGGGAAGAAGCTGTCTGATGACAACACCATCGGGCAGGAGGAGATCCAGCAACGGCTTGCACAGTTTGTGGAGCACTGGAAGGAACTAAAGCAGCTGGCGGCTGCGCGGGGCCAGCGGCTAGAGGAGTCCTTGGAGTATCAGCAGTTTGTAGCCAACGTGGAAGAGGAGGAGGCTTGGATCAATGAGAAGATGACTCTGGTGGCCAGCGAAGACTATGGAGACACTCTTGCTGCTATCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAACGTGGAAGAGGAGGAGG
59.75
TGCTTCCCGGAACAACATGA
59.89
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACGTGGAAGAGGAGGAG
59.75
TGCTTCCCGGAACAACATGA
59.89
174
PCR template sequence:
GCAGTTTGTAGCCAACGTGGAAGAGGAGGAGGCTTGGATCAATGAGAAGATGACTCTGGTGGCCAGCGAAGACTATGGAGACACTCTTGCTGCTATCCAGATATCAGTCTCTGCTGGAACTGGGTGAGAAGAGAAAAGGCATGTTGGAGAAGAGTTGCAAGAAGTTCATGTTGTTCCGGGAAGCAAACGAGTTACAGCAG
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-199a-5p(3), mmu-miR-207(3), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-34a-5p(1), mmu-let-7c-5p(1), mmu-miR-217-5p(1), mmu-miR-320-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-324-3p(1), mmu-miR-452-3p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTGCTATCCAGATATCAGTCTCTG
siRNA sets
AGACTGATATCTGGATAGC, GACTGATATCTGGATAGCA, ACTGATATCTGGATAGCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPTAN1_2518_ORF_1
1.2283
0.498549008
0.99999997
2544
ORF sequence:
ATGGAGACACTCTTGCTGCTATCCAGATATCAGTCTCTGCTGGAACTGGGTGAGAAGAGAAAAGGCATGTTGGAGAAGAGTTGCAAGAAGTTCATGTTGTTCCGGGAAGCAAACGAGTTACAGCAGTGGATCACTGAGAAGGAGGCTGCTCTAACCAATGAGGAGGTTGGCGCTGACTTGGAGCAGGTTGAGGTGCTGCAGAAGAAGTTTGATGACTTCCAGAAGGATCTGAAAGCCAATGAGTCTCGGCTGAAGGACATTAACAAAGTAGCAGAAGACCTGGAGTCTGAAGGTCTGATGGCAGAGGAAGTGCAAGCTGTGCAGCAGCAGGAGGTGTATGGTGCGATGCCCAGGGATGAAGCAGATTCCAAGACGGCCTCCCCATGGAAGTCTGCTCGACTGATGGTCCATACAGTGGCTACCTTCAACTCCATCAAGGAGCTGAATGAGCGTTGGCGGTCCCTGCAACAGCTGGCTGAGGAACGTAGCCAGCTCTTGGGCAGTGCACACGAAGTACAGAGGTTTCACAGAGATGCTGATGAAACTAAAGAATGGATTGAAGAGAAGAATCAGGCTCTGAACACAGACAACTATGGCCATGATTTAGCTAGTGTCCAGGCCCTGCAGCGCAAACATGAAGGCTTTGAGAGGGACCTTGCAGCTCTTGGTGACAAGGTGAATTCCCTTGGGGAAACAGCCCAAAGGCTGATCCAGTCCCACCCTGAATCTGCAGAGGACTTAAAGGAAAAGTGCACAGAGTTAAACCAGGCCTGGACCAGCCTAGGGAAGCGTGCAGACCAGCGCAAGGCCAAATTGGGTGACTCCCATGATCTGCAGCGCTTCCTTAGCGATTTCCGGGACCTCATGTCTTGGATCAATGGAATACGAGGGTTGGTATCTTCAGATGAACTAGCCAAGGACGTCACTGGAGCTGAGGCTTTGCTGGAGCGACACCAGGAACACCGGACAGAAATTGATGCCAGGGCTGGCACTTTCCAGGCATTTGAGCAGTTTGGGCAGCAGCTGTTAGCTCACGGGCACTATGCCAGCCCGGAGATCAAAGAGAAACTTGATATTCTTGACCAGGAGCGCACAGACCTGGAGAAGGCCTGGGTCCAGCGCAGGATGATGCTGGACCACTGCCTGGAGTTGCAGCTGTTCCATCGGGACTGTGAACAAGCAGAAAACTGGATGGCTGCCCGGGAGGCCTTCCTAAACACAGAAGACAAAGGAGACTCGCTGGACAGTGTGGAGGCACTGATCAAAAAACATGAAGACTTTGACAAAGCTATCAATGTCCAGGAAGAAAAGATAGCTGCCCTGCAGGCCTTTGCCGACCAGCTCATTGCCGTTGACCACTATGCCAAGGGAGACATTGCAAACCGACGCAATGAGGTCCTTGACCGGTGGCGCCGCCTAAAAGCCCAGATGATTGAAAAAAGGTCAAAACTTGGAGAATCTCAAACACTTCAGCAGTTCAGCCGGGATGTGGATGAGATTGAAGCCTGGATCAGTGAGAAGTTACAGACAGCCAGTGATGAGTCATACAAGGACCCCACCAACATCCAGCTTTCCAAGCTGTTGAGCAAGCACCAGAAGCACCAAGCCTTTGAGGCAGAACTGCACGCCAATGCTGACCGAATCCGTGGAGTTATCGACATGGGCAACTCCCTCATTGAGCGTGGGGCCTGTGCTGGCAGTGAGGATGCTGTCAAGGCCCGCCTGGCTGCCCTTGCAGACCAGTGGCAGTTCCTGGTGCAGAAATCAGCTGAGAAGAGCCAGAAGCTAAAAGAGGCAAATAAGCAGCAGAACTTCAACACTGGAATCAAAGACTTTGACTTCTGGCTCTCTGAGGTGGAGGCTCTCCTGGCATCGGAAGATTATGGCAAAGACCTGGCTTCTGTGAACAACTTGCTGAAAAAGCATCAGCTGCTAGAGGCAGACATCTCGGCCCACGAGGATCGTCTGAAGGACCTGAACAGCCAGGCTGACAGCCTGATGACTAGCAGTGCCTTCGACACCTCCCAAGTGAAAGAGAAGCGGGACACCATCAATGGACGCTTCCAGAAGATCAAGAGCATGGCCACCTCCCGAAGAGCGAAACTGAGCGAGTCCCACCGCCTGCACCAGTTCTTCCGGGACATGGACGACGAGGAGTCCTGGATCAAGGAGAAGAAGTTGTTAGTGAGCTCTGAGGACTATGGCAGAGACCTCACTGGTGTTCAGAATCTGAGGAAGAAACACAAGCGGCTAGAAGCTGAACTGGCTGCACATGAACCCGCCATTCAGGGTGTCCTGGACACTGGGAAGAAGCTGTCTGATGACAACACCATCGGGCAGGAGGAGATCCAGCAACGGCTTGCACAGTTTGTGGAGCACTGGAAGGAACTAAAGCAGCTGGCGGCTGCGCGGGGCCAGCGGCTAGAGGAGTCCTTGGAGTATCAGCAGTTTGTAGCCAACGTGGAAGAGGAGGAGGCTTGGATCAATGAGAAGATGACTCTGGTGGCCAGCGAAGACTATGGAGACACTCTTGCTGCTATCCAG
Peptide sequence:
METLLLLSRYQSLLELGEKRKGMLEKSCKKFMLFREANELQQWITEKEAALTNEEVGADLEQVEVLQKKFDDFQKDLKANESRLKDINKVAEDLESEGLMAEEVQAVQQQEVYGAMPRDEADSKTASPWKSARLMVHTVATFNSIKELNERWRSLQQLAEERSQLLGSAHEVQRFHRDADETKEWIEEKNQALNTDNYGHDLASVQALQRKHEGFERDLAALGDKVNSLGETAQRLIQSHPESAEDLKEKCTELNQAWTSLGKRADQRKAKLGDSHDLQRFLSDFRDLMSWINGIRGLVSSDELAKDVTGAEALLERHQEHRTEIDARAGTFQAFEQFGQQLLAHGHYASPEIKEKLDILDQERTDLEKAWVQRRMMLDHCLELQLFHRDCEQAENWMAAREAFLNTEDKGDSLDSVEALIKKHEDFDKAINVQEEKIAALQAFADQLIAVDHYAKGDIANRRNEVLDRWRRLKAQMIEKRSKLGESQTLQQFSRDVDEIEAWISEKLQTASDESYKDPTNIQLSKLLSKHQKHQAFEAELHANADRIRGVIDMGNSLIERGACAGSEDAVKARLAALADQWQFLVQKSAEKSQKLKEANKQQNFNTGIKDFDFWLSEVEALLASEDYGKDLASVNNLLKKHQLLEADISAHEDRLKDLNSQADSLMTSSAFDTSQVKEKRDTINGRFQKIKSMATSRRAKLSESHRLHQFFRDMDDEESWIKEKKLLVSSEDYGRDLTGVQNLRKKHKRLEAELAAHEPAIQGVLDTGKKLSDDNTIGQEEIQQRLAQFVEHWKELKQLAAARGQRLEESLEYQQFVANVEEEEAWINEKMTLVASEDYGDTLAAIQ
IRESfinder result
IRESfinder score
0.298440214
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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