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PMC:1189074 / 5236-6060 JSONTXT

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Id Subject Object Predicate Lexical cue
T1137 0-824 sentence denotes Figure 1 Strategy for Disruption of the Mouse Acadm Gene (A) The MCAD IV2 insertion targeting vector with a deleted 1.3-kb region encompassing exon 10 and flanking sequences. MCAD IV2 undergoes gap repair upon homologous recombination at the endogenous Acadm locus resulting in a duplication of exons 8, 9, and 10 at the disrupted allele. (B) Southern blot analysis of EcoRI-digested genomic DNA from ES cells screened by PCR. Probe A, a DNA fragment consisting of a portion of exon 10 that is not present in the targeting vector, hybridizes to an endogenous 3.1-kb fragment and, upon homologous recombination, to a 13.2-kb fragment. Lane 1 represents a wild-type ES cell line, and Lane 2 and 3 represent targeted ES cell lines. ES cell clones were screened by PCR (data not shown) and confirmed by Southern blot analysis.
T1138 731-733 NN denotes ES
T1139 734-738 NN denotes cell
T1140 739-745 NNS denotes clones
T1141 751-759 VBN denotes screened
T1142 746-750 VBD denotes were
T1143 760-762 IN denotes by
T1144 763-766 NN denotes PCR
T1145 767-768 -LRB- denotes (
T1146 777-782 VBN denotes shown
T1147 768-772 NNS denotes data
T1148 773-776 RB denotes not
T1149 782-783 -RRB- denotes )
T1150 784-787 CC denotes and
T1151 788-797 VBN denotes confirmed
T1152 798-800 IN denotes by
T1153 801-809 NNP denotes Southern
T1154 810-814 NN denotes blot
T1155 815-823 NN denotes analysis
T1156 823-824 . denotes .
T7247 11-19 NN denotes Strategy
T7248 20-23 IN denotes for
T7249 24-34 NN denotes Disruption
T7250 35-37 IN denotes of
T7251 38-41 DT denotes the
T7252 54-58 NN denotes Gene
T7253 42-47 NN denotes Mouse
T7254 48-53 NN denotes Acadm
T7255 58-176 sentence denotes (A) The MCAD IV2 insertion targeting vector with a deleted 1.3-kb region encompassing exon 10 and flanking sequences.
T7256 59-60 -LRB- denotes (
T7257 60-61 LS denotes A
T7258 96-102 NN denotes vector
T7259 61-62 -RRB- denotes )
T7260 63-66 DT denotes The
T7261 67-71 NN denotes MCAD
T7262 76-85 NN denotes insertion
T7263 72-75 NN denotes IV2
T7264 86-95 NN denotes targeting
T7265 103-107 IN denotes with
T7266 108-109 DT denotes a
T7267 125-131 NN denotes region
T7268 110-117 VBN denotes deleted
T7269 118-121 CD denotes 1.3
T7270 122-124 NN denotes kb
T7271 121-122 HYPH denotes -
T7272 132-144 VBG denotes encompassing
T7273 145-149 NN denotes exon
T7274 150-152 CD denotes 10
T7275 153-156 CC denotes and
T7276 157-165 VBG denotes flanking
T7277 166-175 NNS denotes sequences
T7278 175-176 . denotes .
T7279 176-340 sentence denotes MCAD IV2 undergoes gap repair upon homologous recombination at the endogenous Acadm locus resulting in a duplication of exons 8, 9, and 10 at the disrupted allele.
T7280 177-181 NN denotes MCAD
T7281 182-185 NN denotes IV2
T7282 186-195 VBZ denotes undergoes
T7283 196-199 NN denotes gap
T7284 200-206 NN denotes repair
T7285 207-211 IN denotes upon
T7286 212-222 JJ denotes homologous
T7287 223-236 NN denotes recombination
T7288 237-239 IN denotes at
T7289 240-243 DT denotes the
T7290 261-266 NN denotes locus
T7291 244-254 JJ denotes endogenous
T7292 255-260 NN denotes Acadm
T7293 267-276 VBG denotes resulting
T7294 277-279 IN denotes in
T7295 280-281 DT denotes a
T7296 282-293 NN denotes duplication
T7297 294-296 IN denotes of
T7298 297-302 NNS denotes exons
T7299 303-304 CD denotes 8
T7300 304-306 , denotes ,
T7301 306-307 CD denotes 9
T7302 307-309 , denotes ,
T7303 309-312 CC denotes and
T7304 313-315 CD denotes 10
T7305 316-318 IN denotes at
T7306 319-322 DT denotes the
T7307 333-339 NN denotes allele
T7308 323-332 VBN denotes disrupted
T7309 339-340 . denotes .
T7310 340-428 sentence denotes (B) Southern blot analysis of EcoRI-digested genomic DNA from ES cells screened by PCR.
T7311 341-342 -LRB- denotes (
T7312 342-343 LS denotes B
T7313 359-367 NN denotes analysis
T7314 343-344 -RRB- denotes )
T7315 345-353 NNP denotes Southern
T7316 354-358 NN denotes blot
T7317 368-370 IN denotes of
T7318 371-376 NN denotes EcoRI
T7319 377-385 VBN denotes digested
T7320 376-377 HYPH denotes -
T7321 394-397 NN denotes DNA
T7322 386-393 JJ denotes genomic
T7323 398-402 IN denotes from
T7324 403-405 NN denotes ES
T7325 406-411 NNS denotes cells
T7326 412-420 VBN denotes screened
T7327 421-423 IN denotes by
T7328 424-427 NN denotes PCR
T7329 427-428 . denotes .
T7330 428-635 sentence denotes Probe A, a DNA fragment consisting of a portion of exon 10 that is not present in the targeting vector, hybridizes to an endogenous 3.1-kb fragment and, upon homologous recombination, to a 13.2-kb fragment.
T7331 429-434 NN denotes Probe
T7332 435-436 NN denotes A
T7333 533-543 VBZ denotes hybridizes
T7334 436-438 , denotes ,
T7335 438-439 DT denotes a
T7336 444-452 NN denotes fragment
T7337 440-443 NN denotes DNA
T7338 453-463 VBG denotes consisting
T7339 464-466 IN denotes of
T7340 467-468 DT denotes a
T7341 469-476 NN denotes portion
T7342 477-479 IN denotes of
T7343 480-484 NN denotes exon
T7344 485-487 CD denotes 10
T7345 488-492 WDT denotes that
T7346 493-495 VBZ denotes is
T7347 496-499 RB denotes not
T7348 500-507 JJ denotes present
T7349 508-510 IN denotes in
T7350 511-514 DT denotes the
T7351 525-531 NN denotes vector
T7352 515-524 NN denotes targeting
T7353 531-533 , denotes ,
T7354 544-546 IN denotes to
T7355 547-549 DT denotes an
T7356 568-576 NN denotes fragment
T7357 550-560 JJ denotes endogenous
T7358 561-564 CD denotes 3.1
T7359 565-567 NN denotes kb
T7360 564-565 HYPH denotes -
T7361 577-580 CC denotes and
T7362 580-582 , denotes ,
T7363 582-586 IN denotes upon
T7364 613-615 IN denotes to
T7365 587-597 JJ denotes homologous
T7366 598-611 NN denotes recombination
T7367 611-613 , denotes ,
T7368 616-617 DT denotes a
T7369 626-634 NN denotes fragment
T7370 618-622 CD denotes 13.2
T7371 623-625 NN denotes kb
T7372 622-623 HYPH denotes -
T7373 634-635 . denotes .
T7374 635-730 sentence denotes Lane 1 represents a wild-type ES cell line, and Lane 2 and 3 represent targeted ES cell lines.
T7375 636-640 NN denotes Lane
T7376 643-653 VBZ denotes represents
T7377 641-642 CD denotes 1
T7378 654-655 DT denotes a
T7379 674-678 NN denotes line
T7380 656-660 JJ denotes wild
T7381 661-665 NN denotes type
T7382 660-661 HYPH denotes -
T7383 666-668 NN denotes ES
T7384 669-673 NN denotes cell
T7385 678-680 , denotes ,
T7386 680-683 CC denotes and
T7387 684-688 NN denotes Lane
T7388 689-690 CD denotes 2
T7389 697-706 VBP denotes represent
T7390 691-694 CC denotes and
T7391 695-696 CD denotes 3
T7392 707-715 VBN denotes targeted
T7393 724-729 NNS denotes lines
T7394 716-718 NN denotes ES
T7395 719-723 NN denotes cell
T7396 729-730 . denotes .
R4678 T7248 T7247 prep for,Strategy
R4679 T7249 T7248 pobj Disruption,for
R4680 T7250 T7249 prep of,Disruption
R4681 T7251 T7252 det the,Gene
R4682 T7252 T7250 pobj Gene,of
R4683 T7253 T7252 compound Mouse,Gene
R4684 T7254 T7252 compound Acadm,Gene
R4685 T7256 T7257 punct (,A
R4686 T7257 T7258 meta A,vector
R4687 T7259 T7257 punct ),A
R4688 T7260 T7258 det The,vector
R4689 T7261 T7262 compound MCAD,insertion
R4690 T7262 T7258 compound insertion,vector
R4691 T7263 T7262 compound IV2,insertion
R4692 T7264 T7258 compound targeting,vector
R4693 T7265 T7258 prep with,vector
R4694 T7266 T7267 det a,region
R4695 T7267 T7265 pobj region,with
R4696 T7268 T7267 amod deleted,region
R4697 T7269 T7270 nummod 1.3,kb
R4698 T7270 T7267 compound kb,region
R4699 T7271 T7270 punct -,kb
R4700 T7272 T7267 acl encompassing,region
R4701 T7273 T7272 dobj exon,encompassing
R4702 T7274 T7273 nummod 10,exon
R4703 T7275 T7273 cc and,exon
R4704 T7276 T7277 amod flanking,sequences
R4705 T7277 T7273 conj sequences,exon
R4706 T7278 T7258 punct .,vector
R4707 T7280 T7281 compound MCAD,IV2
R4708 T7281 T7282 nsubj IV2,undergoes
R4709 T7283 T7284 compound gap,repair
R4710 T7284 T7282 dobj repair,undergoes
R4711 T7285 T7282 prep upon,undergoes
R4712 T7286 T7287 amod homologous,recombination
R4713 T7287 T7285 pobj recombination,upon
R4714 T7288 T7282 prep at,undergoes
R4715 T7289 T7290 det the,locus
R4716 T7290 T7288 pobj locus,at
R4717 T7291 T7290 amod endogenous,locus
R4718 T7292 T7290 compound Acadm,locus
R4719 T7293 T7282 advcl resulting,undergoes
R4720 T7294 T7293 prep in,resulting
R4721 T7295 T7296 det a,duplication
R4722 T7296 T7294 pobj duplication,in
R4723 T7297 T7296 prep of,duplication
R4724 T7298 T7299 nmod exons,8
R4725 T7299 T7297 pobj 8,of
R4726 T7300 T7299 punct ", ",8
R4727 T7301 T7299 conj 9,8
R4728 T7302 T7301 punct ", ",9
R4729 T7303 T7301 cc and,9
R4730 T7304 T7301 conj 10,9
R4731 T7305 T7296 prep at,duplication
R4732 T7306 T7307 det the,allele
R4733 T7307 T7305 pobj allele,at
R4734 T7308 T7307 amod disrupted,allele
R4735 T7309 T7282 punct .,undergoes
R4736 T7311 T7312 punct (,B
R4737 T7312 T7313 meta B,analysis
R4738 T7314 T7312 punct ),B
R4739 T7315 T7316 compound Southern,blot
R4740 T7316 T7313 compound blot,analysis
R4741 T7317 T7313 prep of,analysis
R4742 T7318 T7319 npadvmod EcoRI,digested
R4743 T7319 T7321 amod digested,DNA
R4744 T7320 T7319 punct -,digested
R4745 T7321 T7317 pobj DNA,of
R4746 T7322 T7321 amod genomic,DNA
R4747 T7323 T7321 prep from,DNA
R4748 T7324 T7325 compound ES,cells
R4749 T7325 T7323 pobj cells,from
R4750 T7326 T7325 acl screened,cells
R4751 T7327 T7326 prep by,screened
R4752 T7328 T7327 pobj PCR,by
R4753 T7329 T7313 punct .,analysis
R4754 T7331 T7332 compound Probe,A
R4755 T7332 T7333 nsubj A,hybridizes
R4756 T7334 T7332 punct ", ",A
R4757 T7335 T7336 det a,fragment
R4758 T7336 T7332 appos fragment,A
R4759 T7337 T7336 compound DNA,fragment
R4760 T7338 T7336 acl consisting,fragment
R4761 T7339 T7338 prep of,consisting
R4762 T7340 T7341 det a,portion
R4763 T7341 T7339 pobj portion,of
R4764 T7342 T7341 prep of,portion
R4765 T7343 T7342 pobj exon,of
R4766 T7344 T7343 nummod 10,exon
R4767 T7345 T7346 dep that,is
R4768 T7346 T7341 relcl is,portion
R4769 T7347 T7346 neg not,is
R4770 T7348 T7346 acomp present,is
R4771 T7349 T7346 prep in,is
R4772 T7350 T7351 det the,vector
R4773 T7351 T7349 pobj vector,in
R4774 T7352 T7351 compound targeting,vector
R4775 T7353 T7333 punct ", ",hybridizes
R4776 T7354 T7333 prep to,hybridizes
R4777 T7355 T7356 det an,fragment
R4778 T7356 T7354 pobj fragment,to
R4779 T7357 T7356 amod endogenous,fragment
R4780 T7358 T7359 nummod 3.1,kb
R4781 T7359 T7356 compound kb,fragment
R4782 T7360 T7359 punct -,kb
R4783 T7361 T7333 cc and,hybridizes
R4784 T7362 T7333 punct ", ",hybridizes
R4785 T7363 T7364 prep upon,to
R4786 T7364 T7333 conj to,hybridizes
R4787 T7365 T7366 amod homologous,recombination
R4788 T7366 T7363 pobj recombination,upon
R4789 T7367 T7364 punct ", ",to
R4790 T7368 T7369 det a,fragment
R4791 T7369 T7364 pobj fragment,to
R4792 T7370 T7371 nummod 13.2,kb
R4793 T7371 T7369 compound kb,fragment
R4794 T7372 T7371 punct -,kb
R4795 T7373 T7333 punct .,hybridizes
R4796 T7375 T7376 nsubj Lane,represents
R4797 T7377 T7375 nummod 1,Lane
R4798 T7378 T7379 det a,line
R4799 T7379 T7376 dobj line,represents
R4800 T7380 T7381 amod wild,type
R4801 T7381 T7379 compound type,line
R4802 T7382 T7381 punct -,type
R4803 T7383 T7379 compound ES,line
R4804 T7384 T7379 compound cell,line
R4805 T7385 T7376 punct ", ",represents
R4806 T7386 T7376 cc and,represents
R4807 T7387 T7388 nmod Lane,2
R4808 T7388 T7389 nsubj 2,represent
R4809 T7389 T7376 conj represent,represents
R4810 T7390 T7388 cc and,2
R4811 T7391 T7388 conj 3,2
R4812 T7392 T7393 amod targeted,lines
R4813 T7393 T7389 dobj lines,represent
R4814 T7394 T7393 compound ES,lines
R4815 T7395 T7393 compound cell,lines
R4816 T7396 T7389 punct .,represent
R739 T1138 T1139 compound ES,cell
R740 T1139 T1140 compound cell,clones
R741 T1140 T1141 nsubjpass clones,screened
R742 T1142 T1141 auxpass were,screened
R743 T1143 T1141 prep by,screened
R744 T1144 T1143 pobj PCR,by
R745 T1145 T1146 punct (,shown
R746 T1146 T1141 parataxis shown,screened
R747 T1147 T1146 nsubj data,shown
R748 T1148 T1146 neg not,shown
R749 T1149 T1146 punct ),shown
R750 T1150 T1141 cc and,screened
R751 T1151 T1141 conj confirmed,screened
R752 T1152 T1151 prep by,confirmed
R753 T1153 T1154 compound Southern,blot
R754 T1154 T1155 compound blot,analysis
R755 T1155 T1152 pobj analysis,by
R756 T1156 T1141 punct .,screened

craft-ca-core-dev

Below, discontinuous spans are shown in the chain model. You can change it to the bag model.

Id Subject Object Predicate Lexical cue
T1460 731-738 CL:0002322 denotes ES cell
T7397 42-47 NCBITaxon:10088 denotes Mouse
T7398 54-58 SO:0000704 denotes Gene
T7399 86-102 SO:0001644 denotes targeting vector
T7400 145-149 SO:0000147 denotes exon
T7401 157-165 SO:0000357 denotes flanking
T7402 297-302 SO:0000147 denotes exons
T7403 333-339 SO:0001023 denotes allele
T7404 386-393 SO:0001026 denotes genomic
T7405 403-411 CL:0002322 denotes ES cells
T7406 469-484 SO:0000852 denotes portion of exon
T7407 515-531 SO:0001644 denotes targeting vector
T7408 533-543 GO:0097617 denotes hybridizes
T7409 666-673 CL:0002322 denotes ES cell
T7410 716-723 CL:0002322 denotes ES cell

craft-ca-core-ex-dev

Below, discontinuous spans are shown in the chain model. You can change it to the bag model.

Id Subject Object Predicate Lexical cue
T7411 42-47 NCBITaxon:10088 denotes Mouse
T7412 48-53 GO_PR_EXT:medium_chain_acyl_CoA_dehydrogenase denotes Acadm
T7413 54-58 SO_EXT:0000704 denotes Gene
T7414 67-71 GO_PR_EXT:medium_chain_acyl_CoA_dehydrogenase denotes MCAD
T7415 76-85 SO_EXT:sequence_insertion_entity_or_process denotes insertion
T7416 86-102 SO_EXT:0001644 denotes targeting vector
T7417 110-117 SO_EXT:sequence_deletion_process denotes deleted
T7418 123-124 CHEBI_SO_EXT:base denotes b
T7419 145-149 SO_EXT:0000147 denotes exon
T7420 157-165 SO:0000357 denotes flanking
T7421 166-175 SO_EXT:biological_sequence denotes sequences
T7422 177-181 GO_PR_EXT:medium_chain_acyl_CoA_dehydrogenase denotes MCAD
T7423 196-206 GO_EXT:DNA_gap_repair denotes gap repair
T7424 223-236 GO_SO_EXT:sequence_rearrangement_process denotes recombination
T7425 255-260 GO_PR_EXT:medium_chain_acyl_CoA_dehydrogenase denotes Acadm
T7426 282-293 SO_EXT:sequence_duplication_entity_or_process denotes duplication
T7427 297-302 SO_EXT:0000147 denotes exons
T7428 333-339 SO_EXT:0001023 denotes allele
T7429 386-397 SO_EXT:genomic_DNA denotes genomic DNA
T7430 394-397 CHEBI_SO_EXT:DNA denotes DNA
T7431 403-411 CL:0002322 denotes ES cells
T7432 406-411 CL_GO_EXT:cell denotes cells
T7433 429-434 CHEBI_SO_EXT:molecular_probe denotes Probe
T7434 440-443 CHEBI_SO_EXT:DNA denotes DNA
T7435 469-484 SO_EXT:0000852 denotes portion of exon
T7436 515-531 SO_EXT:0001644 denotes targeting vector
T7437 533-543 GO:0097617 denotes hybridizes
T7438 566-567 CHEBI_SO_EXT:base denotes b
T7439 598-611 GO_SO_EXT:sequence_rearrangement_process denotes recombination
T7440 624-625 CHEBI_SO_EXT:base denotes b
T7441 656-665 SO_EXT:wild_type_entity_or_quality denotes wild-type
T7442 666-673 CL:0002322 denotes ES cell
T7443 669-673 CL_GO_EXT:cell denotes cell
T7444 716-723 CL:0002322 denotes ES cell
T7445 719-723 CL_GO_EXT:cell denotes cell
T1520 731-738 CL:0002322 denotes ES cell
T1521 734-738 CL_GO_EXT:cell denotes cell
T1522 739-745 SO_EXT:sequence_cloned_entity denotes clones