Made
RORA
Locus Rank
45

Gene

Id
189
Gene Name
VPS13C
Duplicated
False
Maternal
True
Gene Not Within Locus (Nearby
False
Gene Description
Mouse Phenotype
Additional Image
Allen Brain
Allen Regions
Zfin In Situ
Zfin Brain Areas
Published Zebrafish Pehnotype
Not In Allen Brain
True
ZFIN Link
http://zfin.org/ZDB-GENE-070426-4
Allen Link
http://mouse.brain-map.org/gene/show/107463
More Additional Images
Papers
http://www.researchgate.net/profile/Anthony_Monaco/publication/8219544_Analysis_of_the_human_VPS13_gene_family/links/0912f50dd91a40cfd7000000.pdf

Locus Rank

Locus Rank
45
Genes in Region
RORA, VPC13C
Associated Snps
rs12903146
GWAS Region (hg19)
chr15:61831663-61909663
Genes Skipping
VPS13C was made, but then the zebrafish genome changed and a new/dominant isoform was predicted that was not eliminated in the tested allele. Maybe worth remaking, although RORA has additional associations with schizophrenia in other studies, as well as associations with autism and depression.
Ricopili Plot Surrounding Area
Distance On Each Side Of Locus In Above Plot
1 MB
Ricopili Plot
Gwas And Surrounding Region Pic
Gwas Region Pic
Genes In Locus Rank
VPS13C
RORA

Sequence 1

Ensembl Gene Name
vps13c
Mutation Area - WT DNA Sequence
ggacggcagACTCTCAAGCTGGAGAGTTTGTGTTTAATCTGGAGAGTTATGTGTATAAGAATCCACCGCGGGgtatgtacagacccattgctatagaaggccacttgcgcccatcatacatttgtttgtttttgatagtttcattttaagtgtgtgttgagagtgttgatttgttttcctcagcactgcttggtgtgcttttgtgtacatttctgcgagtgtgtttttattgcaagtgtgcgtgtttaatacttttctattctttctcaactgacttttctcttttccccaacgctgcgctctgtaagACAAAGGACGTAAGGTTAAAAAGCATAAAAAACCCTTTAGGAGATCAAAAAAGTATGAACATAAAGCAGgtgggtggtcagaagcgactgtgatcgactcgtcacggcaaatattcacaatagttacattttatttgttagaataaaagcatttatttccatggtgctagattaagtcattagaatggcaaatgtaatggacttgcttataaaccctttgtatttaaaattttagAGAAGCCTCAGGAAGAAAAGAAGGACACGTTTGCTGAGAAACTGGCAACACAAGTTATCAAAAACCTCCAGGTCAAAATCACAAGCATTCACATCAGATATGAAGATGATgtaagtgttgacttgtcaaacatgatgtcagctcttcagttatgtgcatttcttgaatgtttgcatgaaataatgataaggatgcagcttttatttgatggtatatttattaatggtatattgtgcctcagGTGTCCGATCCTCAAAAACCTCTTGCTATGGGTTTGACCCTTTCAGAACTCAGCCTACAGg
Mutation Area - Mutant DNA Sequence
ggacggcagACTCTCAAGCTGGAGAGTTTGTGTTTAATCTGGAGAGTTATGTGTATAAGAATCGCGGGgtatgtacagacccattgctatagaaggccacttgcgcccatcatacatttgtttg

This mutant is likely not a true null because it only removes one of two predicted isoforms. When the gRNAs were designed, the zebrafish genome only predicted one isoform.
Guide RNA Target Sites
GTGTATAAGAATCCACCGCGGGg
TTTTGAGGATCGGACACctgagg
ATGAACATAAAGCAGgtgggtgg
Tcttacagagcgcagcgttgggg
Genotyping Primers
f, ggacggcagACTCTCAAGCTGGAG
r, caaacaaatgtatgatgggcgcaagtgg
Alignment of WT and Mutant Sequences w/ gRNA Targets (cyan) and Genotyping Primers (pink) Shown on WT Sequence
Allele
4bpD
WT Genotyping Size
128
WT Protein Sequence
MVFESLVSDLLNRFIGDYVENLDKSQLKIGIWGGNVVLENLKVKENALSELDVPFKVKAG
QIGKLTLKIPWKNLYNEAVVATLDGLYLLVVPGAIESKLFSSSYNAIKYDAVKEERYLQE
AKQKELQRIEETLQLVARRDSQAGEFVFNLESYVYKNPPRDKGRKVKKHKKPFRRSKKYE
HKAEKPQEEKKDTFAEKLATQVIKNLQVKITSIHIRYEDDVSDPQKPLAMGLTLSELSLQ
TADENWKTCILNEAAKIIYKLGRLECFCAYWNVNGPIFYKDSWEGIVEKLKAGISTKNEE
LQGYQYIFKPIFASARMCINPNAEVELKSPKANLHLEVQNIAIEMTKSQYLSMVDLLESI
DCMVKNGPYRKFRPDVPVHRNARQWWKYGISSILEVHVRRFNQMWNWTNIKKHRQTLKSY
KAAYKVKLTQSAKVREDTEKQIQELEKGLDVFNIVLARQQVQMEVVRSGQKLVAKKAATQ
KQSGGGFFSSFFGKKEGKKEEEDKEPESIDSIMTVEEKSKLYTAIGYSGSSHNLALPKHY
VAVIVNFKLLSTSVTFREEPGVPEILKVQMIDLSTSISQRPGAQAIRVEAKLEHWYVTGL
QQQGEVPSLIASLGDSNSSLLSVRFEINPEDSPADQLLRVHSQPVEIIYDALTVISITEF
FKTGKGVDLEVITSATLSKLEEIKEKTATGLSHIIETRKVLDLRIDLKPSYLLLPKSGFY
DGKSELMIVDFGYLQLNSVDQGGHQQVSASFSSLEEIMDRAYERYSLELRSVQILYSRSG
EKWKSACHEGLSHQHILQPMDFTLQLAKCMVDKDARMPRFKVSGELPLLHLKISDQKIQG
VLELVDSIPLPQTSSSPPSSPTGKKVLGMPLSNTRPKVLALDPTVLSYAVESESDEDTSE
KSVDEESLRSTLEELTEVQFQFEVKAVLFELTRQAAQEDVVLAFSVSQLGAEGRIRTFDL
SVTSYLKKISLDYCEEKDVQNQPLHLITSSDKHGSDLLKVEYIKADVNGPSFCTLFNNTE
QTLKVEFSSLDFLLHTKALLSTINYMNSAIPQELTANKERETRRRADRAAAGKTVSKGSK
DAGVVNFKLSAVLGSFRVAVCDDRSNIADIRVQGIDASVMVQAKETDVFARLRDIVVLDV
DPKTIHKKAVSIVGEEVFSFKMTLYPGATEGDGYTDTSKVDGKVIMRLGCIQIVYLHKFL
MSLLMFVDNFQTAKEALSAATAQAAEKAASSVRDFAQKSFRLAMDIRLKAPLIIIPQSST
SHNAFVVDLGLITVGNRFSLLAAEGFPLPAVLETMDIKLTQLKLSRTVLKHDADHLDIEI
LEPINLELLVKRNLAAAWYNKIPGVEVNGVLMSMNMSLGQEDLGVLMRILAENIGEGSKA
AAVEGTKASAKDEAVIDEGLMQTLPVGIGSLPALTNGAFTENVVNVLLNFEIKKVMLMLK
KSKNGDESPFLVLDVSQLGIDTKVRKYDMEATTYIKTISMKCLEFPDSNGEPLCIISSSA
ESGADLLEVKYFKADRNGPNFASLYQNTEQKMNVVFSSLDLMLHTEALLSTMDFLSAALS
TSSLPSPERESKKSEDMKTTSAKSTALSSPSDGDIIDLMVNMQLGAFNVLVCDQKSNMAD
IKIQGLDGSLQMKGTQTHMFTRLRDFIVINVDSKTIHKKAISIVGDEVFSFSMSLTPKAT
EGAGYTDTSKVDGKVKLNVGCIQVVYLHKFFMSLLNFSNNFQEAKEALSAATAQAAEKAA
SSVRDFAQKSFRLAMDIKLKAPLIIIPQSSTSHNAVEADLGLITVGNRFSLLPVEGRPLP
AVIDNMDIQLTQLKLSRISMELDSDQTSSKLLEPVNLVLSVKRNLASSWYQKMAAIEVDG
DLKPMKVALSQDDLSVLLRILMENIGEASDIQSDTALRQENVLVRARTATGSEILEEKLS
ESKLKETELLESVRFSFNVESLGLTLYNNDPSQPCVHEEKSCLGEFMLCKMKMSGKMLNN
GNMEVSTILTTCTLDDRRSGIQRVTSRMLGRRDEETSEPMIDVTYSQSVDERSVVAVLQK
LYLCASVEFLLAVADFFVQALPTSPPTQREKTNQLPLKYVSEPKIHTEPKAVPAQRTKLR
AVVVDPEVVFVANLMKADAPALVASFQCDFSLLSEEAGQTMKANVRSLKVLACPFIRAEG
DKAVTTVLRPCSVELETKMPANAPLAGSMTVEEVIVKISPIILNTVITITAAMAPKPKEE
LSQQKSGDQNSLWSLMSVANANYWFLGVDTASEVTESFTDVDSSKDGETFGLTVKVVQVT
LESGLGHRTVPLLLAESSFSVTAQNWSSLLSVSADMTLEVNYFNETHAVWEPLLERVDNG
KRRWNLKLDMKNNPVRDKSPVPGDDFIMLPDPRTAITICSKDTMNITVSKCCLNVFNNLA
KAFSESTASTFDHSLKEKSPFTIRNALGVALIVQHSANLRVPGSSTLGKVHELAVDKSLD
LEYSSFERSSRQSALQRQESCLFNLSIVPSGYSEISNIPLGKPGRRLYNVRQPMQEESVS
VLLQIDASEGNKVITVRSPLQIKNHFSVPFAILKYSSELGGMVNVGVAEPEKECHVPLEA
YRSQLFLLPVGPLEKLYRASTTCIAWKEKVHVSSEVHAVLQCPATESNFLPLVVNTLAMP
DDLSHIANHGEVEWDPAYLIHLHPPVTVKNLLPYSIRYLLEGSADIYELQEGSAADVLNS
NVSGEIMELILIKYQGRNWTGRMRISRDMPEFITICFNCDTGEALTVDVCVHVSRVSGKF
ILSVHSPYWIINKTSRVLQYRAEDTFVKHPSDFRDVILFSFKKKNIFSKNKLQLCVSTSS
WSEGFSLDTVGSYGCVRCPDKSGDYLVGVSIQMSSFNLTRIVTMSPFYTLVNKSLFELEV
GEVQNNNGSSNKWHYISSTECLPFWPESSTEKLCVRVVGCESSSKSFFFNKQDSGTLLRM
DQYGGVIVDVNISDHSTVISFTDYYDGAAPALVVNHTPSATVNFRQRGCEECWALRPGEA
QRFAWDDPAGVRKLCWSCQDHSGELDLVKDECGQFAYSSLVQIHWVSFLDGRQRVLIFTE
DVGIVTKARQAEELEQFQQEVNVSLQNLGLSLINNDIRQEIAYVGITSSGVVWEMRPKNR
WKSFNHKNIGLLEKAYQNHINKSDPGWTMLETGIEVNFGRVPMLMRQPFSCQIRRNFLPG
IHVELKQSPHQRSLRAQLYWLQVDNQLPGAIFPTVFHPVPLPKSIVQDSEPKPFIDVSII
TRFNEHSQVMQFKYFMALVQEMAVKIDQGFLGAILALFTPATDSLDSKKKNKLIQKDLDA
LQAQLMESSLTDTSGLSFFEHFHISPIKLHLSLSLGSSGDESEQGDMVAIQSVNLLLKSI
GATLTDVDDLIFKLAYFEVKYQFYRRDKLMWAVIRHYTEQFLTQMYVLVLGLDVLGNPFG
LIRGLSEGVEAFFYEPIQGAVQGPEEFAEGLVIGVRSLLGHTVGGAAGMVSRITGSVGKG
LAAITMDKEYQQKRREEMNRPTKDFGESLAKGGKGFLKGVVGGVTGIVTKPVEGAKKEGA
AGFFKGIGKGLVGVVARPTGGIVDMASSTFQGIQRVAESTEEVTKLRPVRLIHEDGIIRP
YDHHASEGYDLFQPEEM-
Mutant Protein Sequence
MVFESLVSDLLNRFIGDYVENLDKSQLKIGIWGGNVVLENLKVKENALSELDVPFKVKAG
QIGKLTLKIPWKNLYNEAVVATLDGLYLLVVPGAIESKLFSSSYNAIKYDAVKEERYLQE
AKQKELQRIEETLQLVARRDSQAGEFVFNLESYVYKNRGTKDVRLKSIKNPLGDQKSMN
IKQRSLRKKRRTRLLRNWQHKLSKTSRSKSQAFTSDMKMMCPILKNLLLWV-
Mutant Genotyping Size
124

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