LOCUS NM_001044236 5337 bp mRNA linear ROD 31-MAR-2024
DEFINITION Rattus norvegicus lysine demethylase 4B (Kdm4b), transcript variant
1, mRNA.
ACCESSION NM_001044236 XM_001057877 XM_001057929 XM_001057990 XM_001058044
XM_006244316 XR_005737
VERSION NM_001044236.3
KEYWORDS RefSeq; RefSeq Select.
SOURCE Rattus norvegicus (Norway rat)
ORGANISM Rattus norvegicus
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
Muroidea; Muridae; Murinae; Rattus.
REFERENCE 1 (bases 1 to 5337)
AUTHORS Zhang,Y., Wang,Y., Zhou,X., Wang,J., Shi,M., Wang,J., Li,F. and
Chen,Q.
TITLE Osmolarity controls the differentiation of adipose-derived stem
cells into nucleus pulposus cells via histone demethylase KDM4B
JOURNAL Mol Cell Biochem 472 (1-2), 157-171 (2020)
PUBMED 32594337
REMARK GeneRIF: Osmolarity controls the differentiation of adipose-derived
stem cells into nucleus pulposus cells via histone demethylase
KDM4B.
REFERENCE 2 (bases 1 to 5337)
AUTHORS Tumber,A., Nuzzi,A., Hookway,E.S., Hatch,S.B., Velupillai,S.,
Johansson,C., Kawamura,A., Savitsky,P., Yapp,C., Szykowska,A.,
Wu,N., Bountra,C., Strain-Damerell,C., Burgess-Brown,N.A.,
Ruda,G.F., Fedorov,O., Munro,S., England,K.S., Nowak,R.P.,
Schofield,C.J., La Thangue,N.B., Pawlyn,C., Davies,F., Morgan,G.,
Athanasou,N., Muller,S., Oppermann,U. and Brennan,P.E.
TITLE Potent and Selective KDM5 Inhibitor Stops Cellular Demethylation of
H3K4me3 at Transcription Start Sites and Proliferation of MM1S
Myeloma Cells
JOURNAL Cell Chem Biol 24 (3), 371-380 (2017)
PUBMED 28262558
REFERENCE 3 (bases 1 to 5337)
AUTHORS Chen,L., Fu,L., Kong,X., Xu,J., Wang,Z., Ma,X., Akiyama,Y., Chen,Y.
and Fang,J.
TITLE Jumonji domain-containing protein 2B silencing induces DNA damage
response via STAT3 pathway in colorectal cancer
JOURNAL Br J Cancer 110 (4), 1014-1026 (2014)
PUBMED 24473398
REFERENCE 4 (bases 1 to 5337)
AUTHORS Zhao,L., Li,W., Zang,W., Liu,Z., Xu,X., Yu,H., Yang,Q. and Jia,J.
TITLE JMJD2B promotes epithelial-mesenchymal transition by cooperating
with beta-catenin and enhances gastric cancer metastasis
JOURNAL Clin Cancer Res 19 (23), 6419-6429 (2013)
PUBMED 24077348
REFERENCE 5 (bases 1 to 5337)
AUTHORS Black,J.C., Van Rechem,C. and Whetstine,J.R.
TITLE Histone lysine methylation dynamics: establishment, regulation, and
biological impact
JOURNAL Mol Cell 48 (4), 491-507 (2012)
PUBMED 23200123
REMARK Review article
REFERENCE 6 (bases 1 to 5337)
AUTHORS Kawazu,M., Saso,K., Tong,K.I., McQuire,T., Goto,K., Son,D.O.,
Wakeham,A., Miyagishi,M., Mak,T.W. and Okada,H.
TITLE Histone demethylase JMJD2B functions as a co-factor of estrogen
receptor in breast cancer proliferation and mammary gland
development
JOURNAL PLoS One 6 (3), e17830 (2011)
PUBMED 21445275
REMARK Publication Status: Online-Only
REFERENCE 7 (bases 1 to 5337)
AUTHORS Northcott,P.A., Nakahara,Y., Wu,X., Feuk,L., Ellison,D.W.,
Croul,S., Mack,S., Kongkham,P.N., Peacock,J., Dubuc,A., Ra,Y.S.,
Zilberberg,K., McLeod,J., Scherer,S.W., Sunil Rao,J.,
Eberhart,C.G., Grajkowska,W., Gillespie,Y., Lach,B., Grundy,R.,
Pollack,I.F., Hamilton,R.L., Van Meter,T., Carlotti,C.G., Boop,F.,
Bigner,D., Gilbertson,R.J., Rutka,J.T. and Taylor,M.D.
TITLE Multiple recurrent genetic events converge on control of histone
lysine methylation in medulloblastoma
JOURNAL Nat Genet 41 (4), 465-472 (2009)
PUBMED 19270706
REFERENCE 8 (bases 1 to 5337)
AUTHORS Trojer,P., Zhang,J., Yonezawa,M., Schmidt,A., Zheng,H., Jenuwein,T.
and Reinberg,D.
TITLE Dynamic Histone H1 Isotype 4 Methylation and Demethylation by
Histone Lysine Methyltransferase G9a/KMT1C and the Jumonji
Domain-containing JMJD2/KDM4 Proteins
JOURNAL J Biol Chem 284 (13), 8395-8405 (2009)
PUBMED 19144645
REFERENCE 9 (bases 1 to 5337)
AUTHORS Fodor,B.D., Kubicek,S., Yonezawa,M., O'Sullivan,R.J., Sengupta,R.,
Perez-Burgos,L., Opravil,S., Mechtler,K., Schotta,G. and
Jenuwein,T.
TITLE Jmjd2b antagonizes H3K9 trimethylation at pericentric
heterochromatin in mammalian cells
JOURNAL Genes Dev 20 (12), 1557-1562 (2006)
PUBMED 16738407
REFERENCE 10 (bases 1 to 5337)
AUTHORS Gray,S.G., Iglesias,A.H., Lizcano,F., Villanueva,R., Camelo,S.,
Jingu,H., Teh,B.T., Koibuchi,N., Chin,W.W., Kokkotou,E. and
Dangond,F.
TITLE Functional characterization of JMJD2A, a histone deacetylase- and
retinoblastoma-binding protein
JOURNAL J Biol Chem 280 (31), 28507-28518 (2005)
PUBMED 15927959
COMMENT VALIDATED REFSEQ: This record has undergone validation or
preliminary review. The reference sequence was derived from
JAXUCZ010000009.1.
On or before Jul 26, 2021 this sequence version replaced
XM_006244316.4, NM_001044236.2.
Sequence Note: The RefSeq transcript and protein were derived from
genomic sequence to make the sequence consistent with the reference
genome assembly. The genomic coordinates used for the transcript
record were based on alignments.
Publication Note: This RefSeq record includes a subset of the
publications that are available for this gene. Please see the Gene
record to access additional publications.
##Evidence-Data-START##
Transcript exon combination :: SRR26643289.24873.1,
SRR26643298.47499.1 [ECO:0000332]
RNAseq introns :: single sample supports all introns
SAMEA5760383, SAMEA5760386
[ECO:0000348]
##Evidence-Data-END##
##RefSeq-Attributes-START##
RefSeq Select criteria :: based on conservation, expression,
longest protein
##RefSeq-Attributes-END##
PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP
1-175 JAXUCZ010000009.1 1245903-1246077
176-340 JAXUCZ010000009.1 1269081-1269245
341-516 JAXUCZ010000009.1 1272048-1272223
517-631 JAXUCZ010000009.1 1272601-1272715
632-825 JAXUCZ010000009.1 1274931-1275124
826-875 JAXUCZ010000009.1 1289253-1289302
876-979 JAXUCZ010000009.1 1292423-1292526
980-1117 JAXUCZ010000009.1 1295771-1295908
1118-1314 JAXUCZ010000009.1 1305773-1305969
1315-1416 JAXUCZ010000009.1 1310585-1310686
1417-1604 JAXUCZ010000009.1 1310829-1311016
1605-1993 JAXUCZ010000009.1 1314987-1315375
1994-2114 JAXUCZ010000009.1 1315671-1315791
2115-2293 JAXUCZ010000009.1 1317138-1317316
2294-2510 JAXUCZ010000009.1 1317426-1317642
2511-2587 JAXUCZ010000009.1 1317864-1317940
2588-2643 JAXUCZ010000009.1 1318087-1318142
2644-2752 JAXUCZ010000009.1 1318247-1318355
2753-2938 JAXUCZ010000009.1 1320350-1320535
2939-3103 JAXUCZ010000009.1 1320665-1320829
3104-3223 JAXUCZ010000009.1 1320912-1321031
3224-3316 JAXUCZ010000009.1 1322060-1322152
3317-5337 JAXUCZ010000009.1 1322364-1324384
FEATURES Location/Qualifiers
source 1..5337
/organism="Rattus norvegicus"
/mol_type="mRNA"
/strain="BN"
/db_xref="taxon:10116"
/chromosome="9"
/map="9q11"
gene 1..5337
/gene="Kdm4b"
/note="lysine demethylase 4B"
/db_xref="GeneID:301128"
/db_xref="RGD:1588576"
exon 1..175
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 176..340
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
misc_feature 179..181
/gene="Kdm4b"
/note="upstream in-frame stop codon"
CDS 200..3499
/gene="Kdm4b"
/EC_number="1.14.11.66"
/note="isoform 1 is encoded by transcript variant 1;
lysine-specific demethylase 4B; lysine (K)-specific
demethylase 4B"
/codon_start=1
/product="lysine-specific demethylase 4B isoform 1"
/protein_id="NP_001037701.2"
/db_xref="GeneID:301128"
/db_xref="RGD:1588576"
/translation="MGSEDHSAQNPSCKIMTFRPTMDEFRDFNRYVAYIESQGAHRAG
LAKIIPPKEWKPRQTYDDIDDVVIPAPIQQVVTGQSGLFTQYNIQKKAMTVGEYRRLA
NSEKYCTPRHQDFDDLERKYWKNLTFVSPIYGADISGSLYDDDVAQWNIGNLRSILDM
VERECGTIIEGVNTPYLYFGMWKTTFAWHTEDMDLYSINYLHFGEPKSWYAIPPEHGK
RLERLAIGFFPGSSQGCDAFLRHKMTLISPIILKKYGIPFSRITQEAGEFMITFPYGY
HAGFNHGFNCAESTNFATLRWIDYGKVATQCTCRKDMVKISMDVFVRILQPERYEQWK
QGRDLTVLDHTRPTALSSPELSSWSASRTSLKAKLLRRQISVKESRPWRKAEEERRPS
LERRREPTRRPGPASHRRRSQPKKSKPEDSRSPGEATAGVAGLDEARGCSRRETMPEE
EEEEELSPSQGHEAEGVEEDGRGKPRPTKARSKKKTPSLLSPPLLSAPPALFPAEEVL
RLPPQPKSPGPAMGPMAAEGGPPPTALNVVPPGVPGEETEVRPRPIIPMLYVLPRANS
SDGDREHAAHPQLAPMELGPEEEDQAQAGDSQGTTSFSKLKVEIKKSRRHPLGRPPTR
SPLSVVKQEASSDEEAFPFSGEDDGSDPEALRSLLSLQWKSKAASFQAERKLNAAAAL
SEPYCAVCTLFYPYSQSVQTEREVLATPGDSAVQPPSKSGQRTRPLIPEMCFTSSGEN
TEPLPANSYVGEDGTSPLISCAHCCLQVHASCYGVRPELAKEGWTCSRCAAHAWTAEC
CLCNLRGGALQRTTEHRWIHVICAIAVPEVRFLNVIERNPVDVSAIPEQRWKLKCVYC
RKRMKRVSGACIQCSYEHCSTSFHVTCAHAAGVLMEPDDWPYVVSITCLKHRASGAGG
QLLRTVSLGQIVITKNRNGLYYRCRVIGTTAQTFYEVNFDDGSYSDNLYPESITSRDC
LRLGPPPEGELVELRWTDGNLYRARFISMATSLIYQVEFEDGSQLTVKRADIFTLEEE
LPKRVRSRLSLSTGTPQEPSFSGDGVKAAKRPRVATVLATTTEDTGRSPEYLAFMESL
LQAQGQPGAPF"
exon 341..516
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 517..631
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 632..825
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 826..875
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 876..979
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 980..1117
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 1118..1314
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 1315..1416
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 1417..1604
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 1605..1993
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 1994..2114
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 2115..2293
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 2294..2510
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 2511..2587
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 2588..2643
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 2644..2752
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 2753..2938
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 2939..3103
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 3104..3223
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 3224..3316
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
exon 3317..5337
/gene="Kdm4b"
/inference="alignment:Splign:2.1.0"
ORIGIN
1 gctgagggct cggccgcgag cgagagaacc aacggaggag cgtagagacc aggcgaagat
61 aggagctgag tggcccgggc gggcaagcga gcgagggccg gcagtggcga cgcgagacgg
121 ctgggcacgc gcagctcaac ctgctgtcca cgctccgggc cgcgcgttgc gccaggtgta
181 gctccacttt gctgcaacga tggggtctga ggaccacagt gcccagaatc ccagctgcaa
241 aatcatgacc ttccgcccca ccatggatga attcagggac ttcaacagat atgtggccta
301 cattgagtcg cagggtgccc accgtgccgg cctggccaag atcatcccac ccaaggagtg
361 gaagccacgg cagacatatg atgacattga tgacgtggtc atcccagcac ctatccaaca
421 ggtggtgaca ggccagtcgg ggcttttcac acagtacaac atccagaaga aggccatgac
481 tgtgggggag taccgccgcc tagccaacag tgagaagtac tgtaccccac gccatcagga
541 cttcgatgac ctggaacgca agtactggaa gaacctgacc tttgtctcac ccatctatgg
601 ggctgacatc agtggctccc tgtatgatga tgacgtggcc cagtggaaca tcggcaatct
661 gaggtccatc ctagacatgg tggagcgcga atgcgggacc atcattgagg gtgtgaacac
721 accctacttg tactttggca tgtggaaaac cacgtttgcc tggcacacag aggacatgga
781 cctctacagc atcaactacc tgcactttgg cgagcccaag tcctggtacg ccataccacc
841 agagcacggc aagcgcctgg agcgcctggc cataggcttc ttccctggga gctcacaggg
901 ctgcgatgcc ttcctaaggc acaagatgac gctcatctcg cccatcatcc tgaagaagta
961 tggcatcccc ttcagccgga ttacacagga agctggggag ttcatgatca cattccccta
1021 tggttaccat gcgggcttca accatggctt taactgcgct gagtccacta actttgccac
1081 gctgcgctgg atcgactatg gcaaagtggc cacacagtgt acatgtcgaa aggacatggt
1141 caagatctcc atggatgtgt ttgtacgcat actgcagccc gaacgctatg agcagtggaa
1201 gcaagggcgt gacctcacag tgctggacca cacgaggccc acagccctga gcagtcccga
1261 gctcagctct tggagtgcct cacgaacttc actcaaggcc aagctcctgc gaagacaaat
1321 tagtgtgaag gagagcagac cctggagaaa ggctgaggag gagaggaggc cgagtctaga
1381 gaggaggcgg gagccgacca ggaggccagg gccggcgtca caccggagac ggagccagcc
1441 caagaagtcc aaacctgaag actccaggtc tccaggggaa gccacagctg gggtagctgg
1501 tctggacgag gccaggggct gttcccggag ggagaccatg cctgaggagg aggaggaaga
1561 ggagctgtca ccttcacagg gccatgaggc cgagggcgtg gaagaggatg gcagaggcaa
1621 gcctcggcca actaaggcca ggagcaagaa gaagactccc agcctactgt cacccccatt
1681 gctgtctgcc ccaccagccc tattccccgc cgaggaggtc ctgaggcttc caccccaacc
1741 taagtctcca gggccagcca tgggccccat ggctgcagag gggggtcctc caccaacagc
1801 cctcaatgtc gtgcctcctg gggtgccagg tgaggaaaca gaggtgcggc cccggcccat
1861 tatcccaatg ctgtacgtgt tgccccgtgc caacagctct gatggggaca gggagcatgc
1921 tgcccatcca cagttggcac ccatggagct ggggccagaa gaggaagacc aggcccaggc
1981 tggtgactca cagggaacaa cctccttctc taagctgaag gtggagatca aaaagagtcg
2041 gcgtcacccc ttgggtcggc cacccacacg gtccccgcta tctgtggtca agcaggaggc
2101 ctcaagtgat gaagaggcct tcccattctc aggagaggat gatggcagtg accctgaggc
2161 cttgaggtcc ctgctgtccc tgcagtggaa gagcaaggca gccagcttcc aagctgagag
2221 gaagctgaat gcggcagccg ccctcagcga gccctactgt gccgtctgta ccctcttcta
2281 cccctacagc cagtcagtac agacagagcg ggaggtcctg gccactccag gggacagtgc
2341 tgtccagccg ccctccaaaa gtggccagag gacacggcca ctgatccctg agatgtgctt
2401 cacttcaagt ggggagaaca cagaaccgct gcctgccaac tcctacgtcg gtgaggacgg
2461 caccagtcca ctcatctcct gtgcccactg ctgtctgcag gtccatgcca gttgctatgg
2521 tgtccggcct gagctggcca aagagggctg gacatgttcc cggtgtgcgg cccacgcctg
2581 gactgcggaa tgctgtttgt gcaaccttcg gggaggagca ctacagagga ccacagagca
2641 caggtggatt catgtgatct gcgccattgc agtccccgag gtacgattcc tcaatgtgat
2701 cgaacgcaac ccagtggacg tcagtgccat ccctgagcag cgatggaaac tgaaatgtgt
2761 gtactgccgc aagcgtatga agagggtgtc gggtgcctgc atccagtgct cctacgagca
2821 ctgctccacg tccttccatg tgacctgcgc acatgctgct ggcgtcctca tggagccaga
2881 tgactggccc tatgtagtgt ccatcacctg cctcaagcac agggccagtg gagcaggggg
2941 ccagctgttg cgcacggtgt ccctgggcca gatcgtcatc accaagaatc gcaatgggct
3001 ctactaccgc tgccgtgtca ttggcaccac tgctcagaca ttctatgagg tcaacttcga
3061 tgatggctcc tacagcgaca acctgtatcc agagagcatc acaagcagag actgtctgcg
3121 gctagggccg cctcctgagg gcgagctggt ggagctgcgg tggacagacg gtaatctgta
3181 cagagccagg ttcatctcca tggccaccag cctcatctac caggtagagt ttgaggatgg
3241 atctcagctg actgtgaagc gtgcggacat cttcacactt gaagaggaat tgcccaagag
3301 ggtacggtcc cggctgtcac tgagcaccgg cacaccacag gagcccagct tctccggaga
3361 tggcgtgaag gccgccaagc gcccacgggt ggccaccgtg ctggccacca ccactgagga
3421 cacagggcgc agcccagaat acctggcctt catggagagc ctgctgcagg cgcagggcca
3481 gcctggagca cccttctaga tactgcccac tcctgtccca ctgtaggtaa ctgggtaaca
3541 ggacccgcag gatccaactt ggccagactc agggagcgag accggcatcc ctggactaca
3601 gtgactccac gggacctggc ctggctctgc tcttctccta aaggtgctaa ggggcgtccc
3661 agagtctcct gtgacagatg ctagccaagg acactggggc acagccccaa cctgttttct
3721 agatttgtgg ctttaaaaat tgacaacagg cacattcttt ttcctctcca ccaagatgcg
3781 aggagataaa agtttcatct gtgtttgaca cctgaggatg tttgtctact gagcaggtgg
3841 gaaggcactt ttgtacaggt gttccctgga gggggcagca gcccagtgtg cagtgacttg
3901 tgtgatggcc gcttgagatg ctccctgctt cctgctcggg gaggtgggcc ctgcaggagt
3961 gggccctgcc ctgcctcctc catgccctgc cctgtgcaga gtatgcctca ctctgccttt
4021 gctgcctggg ctcccatgag ccttcacctt tggactaggg cctctgtgtg gctgagggca
4081 ggagaaagca gattccacct tcacttgaag ccctgatcga gtgacacagg gcacagactt
4141 cacaggccct gtccgcacta gccgccacta cccatgggtt ggctataggt tctgtctctt
4201 tagaagccac tgccgccata gggcctcagg ccccaggaga gacagctgac cttaaatgac
4261 aaaggactgg acagagggac ctggccctgc ggacctgctg gggacttagg gactgggcct
4321 ctgctgagtg cccaatggct gccatgccca tgtgtacatt gaaattctat ttatattgta
4381 aagagaataa aaaaggaccc aacctgggcc tggaaggaga ggccaaaccg caggagtctc
4441 aggctgtgcc ccttgtgggc tctgcagtgg ctgcaggtgg ccctgcttgt gcccccaccc
4501 cccaccctcc agagaggccc tgatttttgt gcaaaaacaa aagctcactc cccgccagat
4561 gaaggactcc atatttttgc ctcattctct ggcctctggt tcagtatcaa ttaaagccct
4621 tgagctgagc gcttcctatt cccacctggt catggctgtg ttgtcatttt gtgccaggac
4681 aagatgggct caggatggag gtgtccttgg caggcataat gggtacagtg tgtcctggtc
4741 tgggcgtagg ggtcgccagg aggtgggacg ccatcctcag gacatctagt atctccacag
4801 tgacgtggag ctgaggccgt gtgtccctcg tgtccctcct gaatgtctgt gctctctctg
4861 actctcctgc ctgctcctac actgtggggc cacagaggag caaaggccct gggattgggc
4921 agaccatggc ctggtgaagc agagggagga gtggaggaag ggtggcctcc aaagggtaga
4981 cttggatttg acttggaggg aggaggagga gggtagaagc tgccaaaggc tctggacaga
5041 agagggggag cctccctggt gctttcagca agagctcagc agcagacagc cccggtgccg
5101 caggggcctt ggtttctctt tgaaactgtc ccatatgact ctaggaagga aagggaaggt
5161 ggccctgcca gtgatagggc ctgggccctg tgggagtgaa gcgatgtcct aggaggggac
5221 atctaactag ctgtcacctc gcctggtaca tcgggccaag ctcacatgta cagcccccag
5281 tcctgggcca aatctagccc tggacctgtt tgttaataaa gttttccttg cacatgg
//