Tools for the biologist enabling optimized use of gene trap clones

  Homepage | Blast Search | GO Search | Advanced Search | About

UniTrap UNI18902
Trapped Gene
Ncor2 (ENSMUSG00000029478)
Vector Insertion
Chr 5: 125634023 - 125659366
Public Clones (sanger) (sanger) (sanger) (sanger) (sanger) (sanger)
(sanger) (sanger) (sanger) (sanger) (sanger) (sanger)
(sanger) (sanger) (sanger) D054H07 (ggtc) (ggtc) (ggtc)
D054H07 (ggtc) (ggtc) E020H02 (ggtc) (ggtc) IST13549D11 (tigm) IST14451A1 (tigm)
IST14636A10 (tigm) IST13050C7 (tigm)
Private Clones OST411825 (lexicon) OST264586 (lexicon) OST224976 (lexicon) OST185952 (lexicon)
Severity of mutation (?) Insertion after 0% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000536603 (Chr5:125659367..125659423 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000536603 (Chr5:125659367..125659423 -)
Downstram Exon
ENSMUSE00000687760 (Chr5:125633977..125634022 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon AGGAGGCTGTGTTCCTCAAA Chr5:125633969..125633988 59.84 50

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000536603 Chr5:125659367..125659423 No primer for this exon
upstream ENSMUSE00000687687 Chr5:125659367..125659550 No primer for this exon
upstream ENSMUSE00000687689 Chr5:125659367..125659572 No primer for this exon
upstream ENSMUSE00000687704 Chr5:125659367..125659589 No primer for this exon
upstream ENSMUSE00000687761 Chr5:125659367..125659584 No primer for this exon

*** Putative Vector Insertion (Chr 5: 125634023 - 125659366) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000687760 Chr5:125633977..125634022 AGGAGGCTGTGTTCCTCAAA Chr5:125633969..125633988 59.84 50
downstream ENSMUSE00000318715 Chr5:125605140..125605270 TGGTGGTAGGGTCCAGGTAG Chr5:125605222..125605241 59.84 60
downstream ENSMUSE00000471726 Chr5:125605140..125605350 TGGTGGTAGGGTCCAGGTAG Chr5:125605222..125605241 59.84 60
downstream ENSMUSE00000719098 Chr5:125605140..125605350 TGGTGGTAGGGTCCAGGTAG Chr5:125605222..125605241 59.84 60
downstream ENSMUSE00000318709 Chr5:125599852..125599979 CAGGCTGGAACTCTGACAGC Chr5:125599840..125599859 61.15 60
downstream ENSMUSE00000687686 Chr5:125599852..125599979 CAGGCTGGAACTCTGACAGC Chr5:125599840..125599859 61.15 60
downstream ENSMUSE00000318701 Chr5:125598987..125599164 GAATTCTATGTCGGGCTTGC Chr5:125599070..125599089 59.67 50
downstream ENSMUSE00000687685 Chr5:125598987..125599164 GAATTCTATGTCGGGCTTGC Chr5:125599070..125599089 59.67 50
downstream ENSMUSE00000318694 Chr5:125590263..125590442 CTCCTCCTTGGACAGTCGAG Chr5:125590319..125590338 59.98 60
downstream ENSMUSE00000517037 Chr5:125586569..125586682 No primer for this exon
downstream ENSMUSE00000318682 Chr5:125583013..125583069 No primer for this exon
downstream ENSMUSE00000189256 Chr5:125578317..125578369 GTGTCAGACGGCTGGTTGTA Chr5:125578322..125578341 59.75 55
downstream ENSMUSE00000189280 Chr5:125572024..125572090 GTGGTTCCTCCGCTTAAAGT Chr5:125572017..125572036 58.32 50
downstream ENSMUSE00000189271 Chr5:125568164..125568336 CCGGGAACTGTTTCTCGTAG Chr5:125568182..125568201 59.73 55
downstream ENSMUSE00000189250 Chr5:125567211..125567304 TGCTCAGACAAGCCATCAAT Chr5:125567193..125567212 59.4 45
downstream ENSMUSE00000318654 Chr5:125565251..125565429 CCTGACGGTCCTTGTAGACC Chr5:125565275..125565294 59.57 60
downstream ENSMUSE00000189246 Chr5:125561500..125561554 CTCTCCAGGAATGAGGCAAT Chr5:125561482..125561501 59.24 50
downstream ENSMUSE00000189289 Chr5:125559378..125559476 CGCCTCACCAAGCTCTTGTA Chr5:125559384..125559403 61.5 55
downstream ENSMUSE00000318635 Chr5:125549302..125549447 GCTTCTCTTCCTCCTTGTCG Chr5:125549314..125549333 59.16 55
downstream ENSMUSE00000189296 Chr5:125548146..125548318 GTTGTCCTCGCCAGAAGTGT Chr5:125548263..125548282 60.31 55
downstream ENSMUSE00000189292 Chr5:125546210..125546272 TCCTCAGTCCAGCGAGAACT Chr5:125546211..125546230 60.13 55
downstream ENSMUSE00000189258 Chr5:125536103..125536245 AGCTTGTGCTGCTGAAGGAT Chr5:125536088..125536107 60.16 50
downstream ENSMUSE00000189275 Chr5:125531281..125531428 TGCTTCCATCTCTTCGTCCT Chr5:125531305..125531324 59.95 50
downstream ENSMUSE00000189249 Chr5:125529712..125529765 CCCAACTCTGGGAACCTCAT Chr5:125529706..125529725 61.28 55
downstream ENSMUSE00000189272 Chr5:125528702..125528904 CTACTGCCGGTTCTTCTGGA Chr5:125528736..125528755 60.39 55
downstream ENSMUSE00000189253 Chr5:125528575..125528697 GGGCTTCTTGTTCATCCTTG Chr5:125528625..125528644 59.67 50
downstream ENSMUSE00000189247 Chr5:125528310..125528572 AGTTTCAATGGCCTCTGTGC Chr5:125528437..125528456 60.26 50
downstream ENSMUSE00000536639 Chr5:125528310..125528904 TTTCCCACATCGATCTCCTC Chr5:125528552..125528571 60.01 50
downstream ENSMUSE00000318572 Chr5:125523115..125523235 CTTCAGCTGCTTCAGGTCCA Chr5:125523120..125523139 61.67 55
downstream ENSMUSE00000189293 Chr5:125522166..125522334 TTTGGGGGTACTGTGTCCTC Chr5:125522266..125522285 59.82 55
downstream ENSMUSE00000687688 Chr5:125522166..125522337 TTTGGGGGTACTGTGTCCTC Chr5:125522266..125522285 59.82 55
downstream ENSMUSE00000331878 Chr5:125519259..125519423 GTGGGGAAGTCTTGATCACC Chr5:125519276..125519295 59.36 55
downstream ENSMUSE00000318541 Chr5:125518231..125518367 ACCCAGCTGCCTCTCAAGTA Chr5:125518221..125518240 60.01 55
downstream ENSMUSE00000392132 Chr5:125517644..125517749 CTCTGAGTGAGGCACACGAA Chr5:125517689..125517708 60.18 55
downstream ENSMUSE00000536631 Chr5:125517644..125517746 CACGAAGCTGGACTGACATC Chr5:125517703..125517722 59.42 55
downstream ENSMUSE00000687723 Chr5:125517432..125517536 AGTGGGCACTCCCAGACTTT Chr5:125517435..125517454 61.08 55
downstream ENSMUSE00000389863 Chr5:125517191..125517288 TTGGTGATGCTTCCACTGGT Chr5:125517227..125517246 61.53 50
downstream ENSMUSE00000318514 Chr5:125516346..125516496 ATAGGACGTGGCCTTTCTTG Chr5:125516333..125516352 59.19 50
downstream ENSMUSE00000318507 Chr5:125514726..125514866 GAGCACTGTGACACGGACAT Chr5:125514820..125514839 59.74 55
downstream ENSMUSE00000189248 Chr5:125514354..125514434 GATGTGATGCTGCTCCTTGA Chr5:125514351..125514370 59.95 50
downstream ENSMUSE00000189267 Chr5:125513696..125513991 CGCCGTAAGTAGTCCTCCTG Chr5:125513924..125513943 59.89 60
downstream ENSMUSE00000189298 Chr5:125512385..125512739 CTGACCGGCTCTTCAGACTC Chr5:125512540..125512559 60.13 60
downstream ENSMUSE00000318482 Chr5:125511056..125511277 CGGGGTGTAGATGTCAGCTT Chr5:125511201..125511220 60.13 55
downstream ENSMUSE00000318478 Chr5:125510342..125510596 TGCTGCGAGGTGATGTAGTC Chr5:125510427..125510446 60.02 55
downstream ENSMUSE00000318473 Chr5:125509490..125509639 GGACAGCGGTGAGCTACTGT Chr5:125509472..125509491 60.48 60
downstream ENSMUSE00000189277 Chr5:125509252..125509383 GGATGGACTTGTCTCGTTCC Chr5:125509275..125509294 59.51 55
downstream ENSMUSE00000536617 Chr5:125508991..125509168 No primer for this exon
downstream ENSMUSE00000370521 Chr5:125508982..125509168 No primer for this exon
downstream ENSMUSE00000189288 Chr5:125507172..125507587 GGGTAGGGTAGACCCCTTCA Chr5:125507468..125507487 60.18 60
downstream ENSMUSE00000318455 Chr5:125506022..125506174 CCTTCCAAGTGGCTCTTCTC Chr5:125506023..125506042 59.01 55
downstream ENSMUSE00000189261 Chr5:125505788..125505933 CTGGAGGAGTGGGCTAGATG Chr5:125505823..125505842 59.82 60
downstream ENSMUSE00000189273 Chr5:125505379..125505572 TGGGAGGTAGAGGTCACTGG Chr5:125505413..125505432 60.1 60
downstream ENSMUSE00000189254 Chr5:125504503..125504652 TCGATACAGCAGTGGGTACG Chr5:125504504..125504523 59.74 55
downstream ENSMUSE00000189259 Chr5:125503871..125504016 CCTGCTTCTTCGACTTCACC Chr5:125503897..125503916 59.99 55
downstream ENSMUSE00000189270 Chr5:125503241..125503294 No primer for this exon
downstream ENSMUSE00000189278 Chr5:125500189..125500416 GGCATTCAGAGGGTTAAAAGC Chr5:125500243..125500263 60.09 47.62
downstream ENSMUSE00000189242 Chr5:125499181..125499360 CTTTTCGGCTGCTAGGTCTG Chr5:125499291..125499310 60.15 55
downstream ENSMUSE00000420064 Chr5:125498205..125498718 AAAGGGTTGTAGGGGAATGG Chr5:125498669..125498688 60.05 50
downstream ENSMUSE00000536607 Chr5:125497532..125498718 AAAGGGTTGTAGGGGAATGG Chr5:125498669..125498688 60.05 50
downstream ENSMUSE00000687706 Chr5:125497525..125498718 AAAGGGTTGTAGGGGAATGG Chr5:125498669..125498688 60.05 50
downstream ENSMUSE00000687702 Chr5:125497523..125498718 AAAGGGTTGTAGGGGAATGG Chr5:125498669..125498688 60.05 50

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 GGCGGATCTGCATCTTAATC Chr5:125650310..125650330 59.63 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GTAGCTGCTGACGTGACTGG Chr5:125650306..125650326 59.65 60 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 AGTAGGCAGCTGGTGTGAGC Chr5:125650376..125650396 60.62 60 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 CCCCACCCCCTTAATATTTG Chr5:125650444..125650464 60.24 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000029478