LOCUS JH169455 539743 bp DNA linear CON 14-MAR-2015 DEFINITION Heterocephalus glaber unplaced genomic scaffold scaffold2014, whole genome shotgun sequence. ACCESSION JH169455 AFSB01000000 VERSION JH169455.1 DBLINK BioProject: PRJNA68323 BioSample: SAMN00217190 KEYWORDS WGS. SOURCE Heterocephalus glaber (naked mole-rat) ORGANISM Heterocephalus glaber Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Hystricomorpha; Bathyergidae; Heterocephalus. REFERENCE 1 (bases 1 to 539743) AUTHORS Kim,E.B., Fang,X., Fushan,A.A., Huang,Z., Lobanov,A.V., Han,L., Marino,S.M., Sun,X., Turanov,A.A., Yang,P., Yim,S.H., Zhao,X., Kasaikina,M.V., Stoletzki,N., Peng,C., Polak,P., Xiong,Z., Kiezun,A., Zhu,Y., Chen,Y., Kryukov,G.V., Zhang,Q., Peshkin,L., Yang,L., Bronson,R.T., Buffenstein,R., Wang,B., Han,C., Li,Q., Chen,L., Zhao,W., Sunyaev,S.R., Park,T.J., Zhang,G., Wang,J. and Gladyshev,V.N. TITLE Genome sequencing reveals insights into physiology and longevity of the naked mole rat JOURNAL Nature 479 (7372), 223-227 (2011) PUBMED 21993625 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 539743) AUTHORS Kim,E.B., Fang,X., Fushan,A., Huang,Z., Lobanov,A., Han,L., Marino,S., Sun,X., Turanov,A., Yang,P., Yim,S.H., Zhao,X., Kasaikina,M., Stoletzki,N., Peng,C., Polak,P., Xiong,Z., Kiezun,A., Zhu,Y., Chen,Y., Kryukov,G., Zhang,Q., Peshkin,L., Yang,L., Bronson,R., Wang,B., Han,C., Li,Q., Chen,L., Zhao,W., Sunyaev,S., Park,T., Zhang,G., Wang,J. and Gladyshev,V. TITLE Direct Submission JOURNAL Submitted (12-JUL-2011) Department of Science and Technology, Beijing Genomics Institute, Shenzhen, 2nd Office Building, Beishan Industrial Zone, Beishan Road, Yantian District, Shenzhen, Guangdong 518083, China COMMENT Source DNA is available from laboratory of Thomas Park at University of Illinois at Chicago. ##Genome-Assembly-Data-START## Assembly Method :: SOAPdenovo v. 1.05 Assembly Name :: HetGla_1.0 Genome Coverage :: 90x Sequencing Technology :: Illumina HiSeq 2000 ##Genome-Assembly-Data-END## FEATURES Location/Qualifiers source 1..539743 /organism="Heterocephalus glaber" /mol_type="genomic DNA" /submitter_seqid="scaffold2014" /db_xref="taxon:10181" /chromosome="Unknown" /sex="male" assembly_gap 1595..1873 /estimated_length=279 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 2684..2750 /estimated_length=67 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 6610..11833 /estimated_length=5224 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 12804..14511 /estimated_length=1708 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 22578..22624 /estimated_length=47 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 23934..26835 /estimated_length=2902 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 30072..30536 /estimated_length=465 /gap_type="within scaffold" /linkage_evidence="unspecified" gene complement(<35973..>122732) /locus_tag="GW7_07890" mRNA complement(join(<35973..36063,56258..56380,57089..57167, 60157..60362,65435..65576,69922..70118,73707..73848, 85376..85554,97564..97714,122270..>122732)) /locus_tag="GW7_07890" /product="Neurotrypsin" CDS complement(join(35973..36063,56258..56380,57089..57167, 60157..60362,65435..65576,69922..70118,73707..73848, 85376..85554,97564..97714,122270..122732)) /locus_tag="GW7_07890" /note="GO_component: GO:0016020 - membrane [Evidence IEA]; GO_function: GO:0003824 - catalytic activity [Evidence IEA]; GO_function: GO:0004252 - serine-type endopeptidase activity [Evidence IEA]; GO_function: GO:0005044 - scavenger receptor activity [Evidence IEA]; GO_process: GO:0006508 - proteolysis [Evidence IEA]" /codon_start=1 /product="Neurotrypsin" /protein_id="EHB06846.1" /db_xref="InterPro:IPR000001" /db_xref="InterPro:IPR001190" /db_xref="InterPro:IPR001254" /db_xref="InterPro:IPR009003" /db_xref="InterPro:IPR013806" /db_xref="InterPro:IPR017448" /db_xref="UniProtKB/Swiss-Prot:O08762" /translation="MTLARFLLALMLGALPEVVSVDPILGYPLCLRHRHSPRGGAQYP DYRTPPSPLCPRRAVPALRPQALQAGHSSRSHPGGCPAGQAGANVTDLGAPCLSWSEV PPFLERSPPASWAQLRGQRHNFCWSLDGKSRPWCFYANARGQVDWGYCACRLGPSLTV IRLTGGSSVQEGRVELYHAGQWGTICDDQWDDADAEVICRQLGLSGIAKAWNEAHFGE GSGPILLDEVHCTGNELSIEQCPKSSWGEHDCGHREDAGVSCTPLTDGAIRLAGGKGS HEGHLEVYYRGQWGTVCDDGWTELNTYVVCRQLGFKYGKQASPNHFEESPGPIWLDDV SCSGEETSFLQCSRRQWGKHDCSHQEDVGIACYPGSNGHKLPLGFPIRLMDGENKKEG RVEVFINGQWGTICDDGWTDKDAAVICRQLGYKGPAKARTMAYFGEGKGPIHMDNVEC TGNERSLADCIKQDIGSHNCRHSEDAGVICDYFGKKASGNSNKESLSSVCGLRLLHRR QKRIIGGKNSLRGGWPWQVSLRLKSSHGDGRLLCGATLLSSCWVLTAAHCFKRYGNSS RNYVIRVGDYHTLVPEEFEEEIGV" assembly_gap 45360..49903 /estimated_length=4544 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 68620..68797 /estimated_length=178 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 75059..78079 /estimated_length=3021 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 78873..84435 /estimated_length=5563 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 98048..98581 /estimated_length=534 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 99403..99892 /estimated_length=490 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 109756..110921 /estimated_length=1166 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 111799..112715 /estimated_length=917 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 116547..117569 /estimated_length=1023 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 118127..118139 /estimated_length=13 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 122774..123081 /estimated_length=308 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 138395..144219 /estimated_length=5825 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 146325..146436 /estimated_length=112 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 147204..149402 /estimated_length=2199 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 149962..150131 /estimated_length=170 /gap_type="within scaffold" /linkage_evidence="unspecified" gene <181271..>207517 /locus_tag="GW7_07891" mRNA join(<181271..181336,189423..189511,190233..190320, 194563..194643,195074..195161,197882..197972, 199216..199357,200943..201035,203943..204059, 205208..205418,207213..>207517) /locus_tag="GW7_07891" /product="Methyltransferase-like protein 14" CDS join(181271..181336,189423..189511,190233..190320, 194563..194643,195074..195161,197882..197972, 199216..199357,200943..201035,203943..204059, 205208..205418,207213..207517) /locus_tag="GW7_07891" /note="GO_function: GO:0008168 - methyltransferase activity [Evidence IEA]; GO_process: GO:0006139 - nucleobase, nucleoside, nucleotide and nucleic acid metabolic process [Evidence IEA]" /codon_start=1 /product="Methyltransferase-like protein 14" /protein_id="EHB06847.1" /db_xref="InterPro:IPR007757" /db_xref="UniProtKB/Swiss-Prot:Q3UIK4" /translation="MDSRLQEIRERQKLRRQLLAQQLGAESADSIGAVLNSKEEQREI AETRETCRASYDTAAPNAKRKCLDEGEPDEDKVEEYKDELEMQQEEENLPYEEEIYKD SSTFLKGTQSLNPHNDYCQHFVDTGHRPQNFIRDVGLADRFEEYPKLRELIRLKDELI AKSNTPPMYLQADIEAFDIRELTPKFDVILLEPPLEEYYRETGITANEKCWTWDDIMK LEIDEIAAPRSFIFLWCGSGEGLDLGRVCLRKWGYRRCEDICWIKTNKNNPGKTKTLD PKAVFQRTKEHCLMGIKGTVKRSTDGDFIHANVDIDLIITEEPEIGNIEKPVEIFHII EHFCLGRRRLHLFGRDSTIRPGWLTVGPTLTNSNYNAETYASYFSAPNSYLTGCTEEI ERLRPKSPPPKSKSDRGGGAPRGGGRGGTSAGRGRERNRSNFRGERGGFRGGRGGTHR GGFPPR" assembly_gap 181378..181399 /estimated_length=22 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 190567..193689 /estimated_length=3123 /gap_type="within scaffold" /linkage_evidence="unspecified" gene complement(<214317..>308416) /locus_tag="GW7_07892" mRNA complement(join(<214317..214457,220968..221057, 225341..225532,227182..227361,230435..230553, 231277..231415,233038..233183,233314..233410, 236073..236243,236929..237045,245661..245754, 246325..246516,255583..255707,262445..262560, 264657..264795,285660..285787,292159..292270, 296852..296979,297250..297528,299003..299151, 300934..301063,308302..>308416)) /locus_tag="GW7_07892" /product="Protein transport protein Sec24D" CDS complement(join(214317..214457,220968..221057, 225341..225532,227182..227361,230435..230553, 231277..231415,233038..233183,233314..233410, 236073..236243,236929..237045,245661..245754, 246325..246516,255583..255707,262445..262560, 264657..264795,285660..285787,292159..292270, 296852..296979,297250..297528,299003..299151, 300934..301063,308302..308416)) /locus_tag="GW7_07892" /note="GO_component: GO:0030127 - COPII vesicle coat [Evidence IEA]; GO_function: GO:0008270 - zinc ion binding [Evidence IEA]; GO_process: GO:0006886 - intracellular protein transport [Evidence IEA]; GO_process: GO:0006888 - ER to Golgi vesicle-mediated transport [Evidence IEA]" /codon_start=1 /product="Protein transport protein Sec24D" /protein_id="EHB06848.1" /db_xref="InterPro:IPR006895" /db_xref="InterPro:IPR006896" /db_xref="InterPro:IPR006900" /db_xref="InterPro:IPR007123" /db_xref="InterPro:IPR012990" /db_xref="UniProtKB/Swiss-Prot:O94855" /translation="MSQQGYVATPPYSQSQSGIGLSPLHGHYGDPSHAASPPGMMKPV GNLGATAPVVMMSPSPPPPGPHQLGQNGAQASGHSPQRFPGLLPVNSAAPSYAQYQPS TQPSYPSPVSTSSVTHLGSQLSAMHINSYGSGMAPPSQAPPGPPSVASFQGPPRPPQP SVLQPGSQVLPPPPTTLNGPGVSPLSLPAHRQDGLPGLPPLNTQYQPPPPPGPVLGAG YSPQQQANYGPQMAGAQLSYPGSFPECPAQMAGTPPPPKKLDPDSIPSPIQVIENDRA TRGGQVYSTNTRGQVPPLVTTDCVVQDQGNASPRYIRCTTYCFPCTSDMAKQAQIPLA AIIKPFATIPSNETPLYLVNHGENGPVRCNRCKAYMCPFMQFIEGGRRYQCGFCNCVN DVPPFYFQHLDHIGRRLDHYEKPELSLGSYEFVATLDYCRKNKPPNPPAFIFMIDVSY SNIKNGLVKLICEELKTVLEKLPKEEQEETSAIRVGFITYNKVLHFFNVKSNLARPQM MVVTDVGEVFVPLLDGFLVNYQESQSVIHNLLDQIPEIFADSNENETVFAPVIQAGME ALKAAECPGKLYIFHSSLPTAEAPGKLKNRNDKKLLNTDKEKILFQPQTSVYDSLAKD CVAHGCSMTVFLFPSQYVDVASLGLVPQLTGGTLYKYNNFQMHLDSQQFLNDLRNDIE KKIGFDAIMRVRTSTGFRATDFFGGAFMNNTTDVEMAAIDCDKAVTVGFKHDDKLNED SGALIQCAVLYTTIGGQRRLRIHNLGLNCSSQLADLYNSCETDALINFFAKSAFKAVL HQPLKVIREILVNQTAHMLACYRKNCTNPSAVNQLILPDSMKIFPVYMNCLLKNCVLR SRPEISTDERAYQRQLVMTMGVADSQLFFYPQLLPIHTLDLKSTMLPAAVRCSESRLS EEGIFLLANGLNMFLWLGVSSPPELIQGIFNVPSFAHINTDMTLLPEVGNPHSQQLRM IMNIIQQKKPYSMKLTIVKQREQPEMVFRQFLVEDKGLYGGSSYVDFLCCVHRKISQL LN" assembly_gap 221197..221389 /estimated_length=193 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 247562..247594 /estimated_length=33 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 252448..252787 /estimated_length=340 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 253982..254908 /estimated_length=927 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 307487..307514 /estimated_length=28 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 309990..310624 /estimated_length=635 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 316118..335302 /estimated_length=19185 /gap_type="within scaffold" /linkage_evidence="unspecified" gene complement(<335942..>341547) /locus_tag="GW7_07893" mRNA complement(join(<335942..336370,337260..337578, 341540..>341547)) /locus_tag="GW7_07893" /product="TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L" CDS complement(join(335942..336370,337260..337578, 341540..341547)) /locus_tag="GW7_07893" /note="GO_component: GO:0005634 - nucleus [Evidence IEA]; GO_function: GO:0030528 - transcription regulator activity [Evidence IEA]; GO_process: GO:0045449 - regulation of transcription [Evidence IEA]" /codon_start=1 /product="TAF5-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 5L" /protein_id="EHB06849.1" /db_xref="InterPro:IPR001680" /db_xref="InterPro:IPR007582" /db_xref="InterPro:IPR011046" /db_xref="InterPro:IPR017986" /db_xref="InterPro:IPR019781" /db_xref="InterPro:IPR019782" /db_xref="UniProtKB/Swiss-Prot:Q91WQ5" /translation="MHCLVQSSPKSTVESFYSCFHGMFLQNASQKDVIEQLQTTQTIQ DILSNFKLRAFLDNKYVGRLQEDSYNYLIRYLQSDNNTALCKVLTLHIHLDVQPAKGT DYQLYASKTVRLWSAQQGNSVRLFTGHRGPVLSLAFSPNGKYLASAGEDRRLKLWDLA SGTLFKELRGHTDSITSLAFSPDSGLVASASMDNSVRIWDLWNTCCSMPADGSSSEFV GVYTGQMSSILSVQFMACNLLLVTGITQENQEH" assembly_gap 336457..336925 /estimated_length=469 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 338012..338206 /estimated_length=195 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 338640..338774 /estimated_length=135 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 346460..348069 /estimated_length=1610 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 353641..353662 /estimated_length=22 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 361139..361364 /estimated_length=226 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 363082..368835 /estimated_length=5754 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 373021..373673 /estimated_length=653 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 374132..375374 /estimated_length=1243 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 375617..376588 /estimated_length=972 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 377484..377967 /estimated_length=484 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 382810..383394 /estimated_length=585 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 383682..385677 /estimated_length=1996 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 406018..407393 /estimated_length=1376 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 415731..417382 /estimated_length=1652 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 417623..419312 /estimated_length=1690 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 427971..428151 /estimated_length=181 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 428779..429134 /estimated_length=356 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 436843..437069 /estimated_length=227 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 478389..478405 /estimated_length=17 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 490126..490190 /estimated_length=65 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 498542..498556 /estimated_length=15 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 518698..520773 /estimated_length=2076 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 521534..521968 /estimated_length=435 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 522457..522776 /estimated_length=320 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 524858..525311 /estimated_length=454 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 526526..528941 /estimated_length=2416 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 529590..529650 /estimated_length=61 /gap_type="within scaffold" /linkage_evidence="unspecified" assembly_gap 538906..539457 /estimated_length=552 /gap_type="within scaffold" /linkage_evidence="unspecified" CONTIG join(AFSB01107694.1:1..1594,gap(279),AFSB01107695.1:1..810,gap(67), AFSB01107696.1:1..3859,gap(5224),AFSB01107697.1:1..970,gap(1708), AFSB01107698.1:1..8066,gap(47),AFSB01107699.1:1..1309,gap(2902), AFSB01107700.1:1..3236,gap(465),AFSB01107701.1:1..14823,gap(4544), AFSB01107702.1:1..18716,gap(178),AFSB01107703.1:1..6261,gap(3021), AFSB01107704.1:1..793,gap(5563),AFSB01107705.1:1..13612,gap(534), AFSB01107706.1:1..821,gap(490),AFSB01107707.1:1..9863,gap(1166), AFSB01107708.1:1..877,gap(917),AFSB01107709.1:1..3831,gap(1023), AFSB01107710.1:1..557,gap(13),AFSB01107711.1:1..4634,gap(308), AFSB01107712.1:1..15313,gap(5825),AFSB01107713.1:1..2105,gap(112), AFSB01107714.1:1..767,gap(2199),AFSB01107715.1:1..559,gap(170), AFSB01107716.1:1..31246,gap(22),AFSB01107717.1:1..9167,gap(3123), AFSB01107718.1:1..27507,gap(193),AFSB01107719.1:1..26172,gap(33), AFSB01107720.1:1..4853,gap(340),AFSB01107721.1:1..1194,gap(927), AFSB01107722.1:1..52578,gap(28),AFSB01107723.1:1..2475,gap(635), AFSB01107724.1:1..5493,gap(19185),AFSB01107725.1:1..1154,gap(469), AFSB01107726.1:1..1086,gap(195),AFSB01107727.1:1..433,gap(135), AFSB01107728.1:1..7685,gap(1610),AFSB01107729.1:1..5571,gap(22), AFSB01107730.1:1..7476,gap(226),AFSB01107731.1:1..1717,gap(5754), AFSB01107732.1:1..4185,gap(653),AFSB01107733.1:1..458,gap(1243), AFSB01107734.1:1..242,gap(972),AFSB01107735.1:1..895,gap(484), AFSB01107736.1:1..4842,gap(585),AFSB01107737.1:1..287,gap(1996), AFSB01107738.1:1..20340,gap(1376),AFSB01107739.1:1..8337,gap(1652), AFSB01107740.1:1..240,gap(1690),AFSB01107741.1:1..8658,gap(181), AFSB01107742.1:1..627,gap(356),AFSB01107743.1:1..7708,gap(227), AFSB01107744.1:1..41319,gap(17),AFSB01107745.1:1..11720,gap(65), AFSB01107746.1:1..8351,gap(15),AFSB01107747.1:1..20141,gap(2076), AFSB01107748.1:1..760,gap(435),AFSB01107749.1:1..488,gap(320), AFSB01107750.1:1..2081,gap(454),AFSB01107751.1:1..1214,gap(2416), AFSB01107752.1:1..648,gap(61),AFSB01107753.1:1..9255,gap(552), AFSB01107754.1:1..286) //