2024-05-06 11:30:16, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_054328371 6459 bp mRNA linear PRI 05-OCT-2023 DEFINITION PREDICTED: Homo sapiens lysine demethylase 5D (KDM5D), transcript variant X6, mRNA. ACCESSION XM_054328371 VERSION XM_054328371.1 DBLINK BioProject: PRJNA807723 KEYWORDS RefSeq. SOURCE Homo sapiens (human) ORGANISM Homo sapiens Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_060948) annotated using gene prediction method: Gnomon, supported by mRNA and EST evidence. Also see: Documentation of NCBI's Annotation Process ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Status :: Updated annotation Annotation Name :: GCF_009914755.1-RS_2023_10 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 10.2 Annotation Method :: Best-placed RefSeq; Gnomon; RefSeqFE; cmsearch; tRNAscan-SE Features Annotated :: Gene; mRNA; CDS; ncRNA Annotation Date :: 10/02/2023 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..6459 /organism="Homo sapiens" /mol_type="mRNA" /isolate="NA24385" /bio_material="CORIELL:NA24385" /db_xref="taxon:9606" /chromosome="Y" /sex="male" /tissue_type="B-Lymphocyte" gene 1..6459 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="lysine demethylase 5D; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 37 ESTs, 428 long SRA reads, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 50 samples with support for all annotated introns" /db_xref="GeneID:8284" /db_xref="HGNC:HGNC:11115" /db_xref="MIM:426000" CDS 76..4329 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /codon_start=1 /product="lysine-specific demethylase 5D isoform X6" /protein_id="XP_054184346.1" /db_xref="GeneID:8284" /db_xref="HGNC:HGNC:11115" /db_xref="MIM:426000" /translation="
MEPGCDEFLPPPECPVFEPSWAEFQDPLGYIAKIRPIAEKSGICKIRPPADWQPPFAVEVDNFRFTPRVQRLNELEAQTRVKLNYLDQIAKFWEIQGSSLKIPNVERKILDLYSLSKIVIEEGGYEAICKDRRWARVAQRLHYPPGKNIGSLLRSHYERIIYPYEMFQSGANHVPEPTEEDIEKHPELKKLQIYGPGPKMMGLGLMAKDKDKTVHKKVTCPPTVTVKDEQSGGGNVSSTLLKQHLSLEPCTKTTMQLRKNHSSAQFIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILAECKQPPEAFGFEQATQEYSLQSFGEMADSFKSDYFNMPVHMVPTELVEKEFWRLVSSIEEDVTVEYGADIHSKEFGSGFPVSNSKQNLSPEEKEYATSGWNLNVMPVLDQSVLCHINADISGMKVPWLYVGMVFSAFCWHIEDHWSYSINYLHWGEPKTWYGVPSLAAEHLEEVMKMLTPELFDSQPDLLHQLVTLMNPNTLMSHGVPVVRTNQCAGEFVITFPRAYHSGFNQGYNFAEAVNFCTADWLPAGRQCIEHYRRLRRYCVFSHEELICKMAAFPETLDLNLAVAVHKEMFIMVQEERRLRKALLEKGVTEAEREAFELLPDDERQCIKCKTTCFLSALACYDCPDGLVCLSHINDLCKCSSSRQYLRYRYTLDELPTMLHKLKIRAESFDTWANKVRVALEVEDGRKRSFEELRALESEARERRFPNSELLQRLKNCLSEVEACIAQVLGLVSGQVARMDTPQLTLTELRVLLEQMGSLPCAMHQIGDVKGLLVMGAKIASSPSVDKARAELQELLTIAERWEEKAHFCLEARQKHPPATLEAIIRETENIPVHLPNIQALKEALTKAQAWIADVDEIQNGDHYPCLDDLEGLVAVGRDLPVGLEELRQLELQVLTAHSWREKASKTFLKKNSCYTLLEVLCPCADAGSDSTKRSRWMEKALGLYQCDTELLGLSAQDLRDPGSVIVAFKEGEQKEKEGILQLRRTNSAKPSPLAPSLMASSPTSICVCGQVPAGVGVLQCDLCQDWFHGQCVSVPHLLTSPKPSLTSSPLLAWWEWDTKFLCPLCMRSRRPRLETILALLVALQRLPVRLPEGEALQCLTERAIGWQDRARKALASEDVTALLRQLAELRQQLQAKPRPEEASVYTSATACDPIREGSGNNISKVQGLLENGDSVTSPENMAPGKGSDLELLSSLLPQLTGPVLELPEAIRAPLEELMMEGDLLEVTLDENHSIWQLLQAGQPPDLDRIRTLLELEKFEHQGSRTRSRALERRRRRQKVDQGRNVENLVQQELQSKRARSSGIMSQVGREEEHYQEKADRENMFLTPSTDHSPFLKGNQNSLQHKDSGSSAACPSLMPLLQLSYSDEQQL"
misc_feature 112..237 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="Small domain found in the jumonji family of transcription factors; Region: JmjN; smart00545" /db_xref="CDD:128818" misc_feature 310..585 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="ARID/BRIGHT DNA binding domain of lysine-specific demethylase KDM5C and KDM5D; Region: ARID_KDM5C_5D; cd16875" /db_xref="CDD:350639" misc_feature order(376..396,469..471,475..480,487..489,517..519, 523..531,535..537) /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="putative DNA binding site [nucleotide binding]; other site" /db_xref="CDD:350639" misc_feature 886..1023 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="PHD finger 1 found in Lysine-specific demethylase 5C (KDM5C) and 5D (KDM5D); Region: PHD1_KDM5C_5D; cd15604" /db_xref="CDD:277077" misc_feature order(886..888,922..936,946..948,1006..1008) /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="putative histone H3 binding site [polypeptide binding]; other site" /db_xref="CDD:277077" misc_feature 1411..1761 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="JmjC domain, hydroxylase; Region: JmjC; pfam02373" /db_xref="CDD:396791" misc_feature 2029..2187 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="C5HC2 zinc finger; Region: zf-C5HC2; pfam02928" /db_xref="CDD:427059" misc_feature 2224..2970 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="PLU-1-like protein; Region: PLU-1; pfam08429" /db_xref="CDD:429992" misc_feature 3229..3411 /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="PHD finger 2 found in Lysine-specific demethylase 5C (KDM5C) and 5D (KDM5D); Region: PHD2_KDM5C_5D; cd15608" /db_xref="CDD:277081" misc_feature order(3229..3231,3262..3276,3286..3288,3394..3396) /gene="KDM5D" /gene_synonym="HY; HYA; JARID1D; SMCY" /note="putative histone H3 binding site [polypeptide binding]; other site" /db_xref="CDD:277081" ORIGIN
actgcagggcccggaggtcaagatggtggctgtaaaactaggatccctgacgattgcttagcattaaggcccgacatggaaccggggtgtgacgagttcctgccgccaccggagtgcccggtttttgagcctagctgggctgaattccaagacccgcttggctacattgcgaaaataaggcccatagcagagaagtctggcatctgcaaaatccgcccacccgcggattggcagcctccttttgcagtagaagttgacaatttcagatttactcctcgcgtccaaaggctaaatgaactggaggcccaaactagagtgaaattgaactatttggatcagattgcaaaattctgggaaattcaaggctcctctttaaagattcccaatgtggagcggaagatcttggacctctacagccttagtaagattgtgattgaggaaggtggctatgaagccatctgcaaggatcgtcggtgggctcgagttgcccagcgtctccactacccaccaggcaaaaacattggctccctgctacgatcacattacgaacgcattatttacccctatgaaatgtttcagtctggagccaaccatgtgccagagcctacagaggaggacattgagaagcatccagagctaaagaagttacagatatatgggccaggtcccaaaatgatgggcttgggccttatggctaaggataaggataagactgtgcataagaaagtcacatgccccccaactgttacggtgaaggatgagcaaagtggaggtgggaacgtgtcatcaacattgctcaagcagcacttgagcctagagccctgcactaagacaaccatgcaacttcgaaagaatcacagcagtgcccagtttattgactcatatatttgccaagtatgctcccgtggggatgaagatgataagcttcttttctgtgatggctgtgatgacaattaccacatcttctgcttgttaccaccccttcctgaaatccccagaggcatctggaggtgcccaaaatgtatcttggcggagtgtaaacagcctcctgaagcttttggatttgaacaggctacccaggagtacagtttgcagagttttggtgaaatggctgattccttcaagtccgactacttcaacatgcctgtacatatggtgcctacagaacttgtagagaaggaattctggaggctggtgagcagcattgaggaagacgtgacagttgaatatggagctgatattcattccaaagaatttggcagtggctttcctgtcagcaatagcaaacaaaacttatctcctgaggagaaggagtatgcgaccagtggttggaacctgaatgtgatgccagtgctagatcagtctgttctctgtcacatcaatgcagacatctcaggcatgaaggtgccctggctgtacgtgggcatggttttctcagcattttgttggcatattgaggatcactggagttactctattaactatctgcattggggtgagccgaagacctggtatggtgtaccctccctggcagcagagcatttggaggaggtgatgaagatgctgacacctgagctgtttgatagccagcctgatctcctacaccagcttgtcactctcatgaatcccaacactttgatgtcccatggtgtgccagttgtccgcacaaaccagtgtgcaggggagtttgtcatcacttttcctcgtgcttaccacagtggttttaaccaaggctacaattttgctgaagctgtcaacttttgtactgctgactggctacctgctggacgccagtgcattgaacactaccgccggctccggcgctattgtgtcttctcccacgaggagctcatctgcaagatggctgccttcccagagacgttggatctcaatctagcagtagctgtgcacaaggagatgttcattatggttcaggaggagcgacgtctacgaaaggcccttttggagaagggcgtcacggaggctgagcgagaggcttttgagctgctcccagatgatgaacgccagtgcatcaagtgcaagaccacgtgcttcttgtcagccctggcctgctacgactgcccagatggccttgtatgcctttcccacatcaatgacctctgcaagtgctctagtagccgacagtacctccggtatcggtacaccttggatgagctccccaccatgctgcataaactgaagattcgggctgagtcttttgacacctgggccaacaaagtgcgagtggccttggaggtggaggatggccgtaaacgcagctttgaagagctaagggcactggagtctgaggctcgtgagaggaggtttcctaatagtgagctgcttcagcgactgaagaactgcctgagtgaggtggaggcttgtattgctcaagtcctggggctggtcagtggtcaggtggccaggatggacactccacagctgaccttgactgaactccgggtccttcttgagcagatgggcagcctgccctgtgccatgcatcagattggggatgtcaaggggcttttggttatgggtgccaagatagcctccagcccttctgtggacaaggcccgggctgagctgcaagaactactgaccattgcagagcgctgggaagaaaaggctcatttctgcctggaggccaggcagaagcatccaccagccacattggaagccataattcgtgagacagaaaacatccctgttcacctgcctaacatccaggctctcaaagaagctctgactaaggcacaagcttggattgctgatgtggatgagatccaaaatggtgaccactacccctgtctagatgacttggagggcctggtggctgtgggccgggacctgcctgtggggctggaagagctgagacagctagagctgcaggtattgacagcacattcctggagagagaaggcctccaagacctttctcaagaagaattcttgctacacactgcttgaggtgctttgcccgtgtgcagacgctggctcagacagcaccaagcgtagccggtggatggagaaggcgctggggttgtaccagtgtgacacagagctgctggggctgtctgcacaggacctcagagacccaggctctgtgattgtggccttcaaggaaggggaacagaaggagaaggagggtatcctgcagctgcgtcgcaccaactcagccaagcccagtccactggcaccatccctcatggcctcttctccgacttctatctgtgtgtgtgggcaggtgccagctggggtgggagttctgcagtgtgacctgtgtcaggactggttccatgggcagtgtgtgtcagtgccccatctcctcacctctccaaagcccagtctcacttcatctccactgctagcctggtgggaatgggacacaaaattcctgtgtccactgtgtatgcgctcacgacggccacgcctagagacaatcctagccttgctggttgccctgcagaggctgcccgtgcggctgcctgagggtgaggcccttcagtgtctcacagagagggccattggctggcaagaccgtgccagaaaggctctggcctctgaagatgtgactgctctgttgcgacagctggctgagcttcgccaacagctacaggccaaacccagaccagaggaggcctcagtctacacttcagccactgcctgtgaccctatcagagaaggcagtggcaacaatatttctaaggtccaagggctgctggagaatggagacagtgtgaccagtcctgagaacatggctccaggaaagggctctgacctggagctactgtcctcactgttgccgcagttgactggccctgtgttggagctgcctgaggcaatccgggctcccctggaggagctcatgatggaaggggacctgcttgaggtgaccctggatgagaaccacagcatctggcagctgctgcaggctggacagcctccagacctggacagaattcgcacacttctggagctggaaaaatttgaacatcaagggagtcggacaaggagccgggctctggagaggcgacggcggcggcagaaggtggatcagggtagaaacgttgagaatcttgttcaacaggagcttcagtcaaaaagggctcggagctcagggattatgtctcaggtgggccgagaagaagaacattatcaggagaaagcagaccgtgaaaatatgttcctgacaccttccacagaccacagccctttcttgaaaggaaaccaaaatagcttacaacacaaggattcaggctcttcagctgcttgtccttctttaatgcctttgctacaactctcctactctgatgagcaacagttgtgacagtggcaccaaaggtcatttgtggttgtttttgtttgtttgtttcttaaatcctactatctcctggcctggacctcagaaggagctttttgcctatctataatttttcactgccaatttttgatatcctctctcctagagttactgttaaaaggttggttcgtaaagtccacaccccgatgctcagaagtgtcttgccagcaacattcctgctagcatacaggagtgatttcctaaaccagtttcattctagtctgaatagggacaaacaaatcttgaggaagcccaagtgcgtacctttatttttgcccccaccaccctctttctgtacttcaatttttgtttgttttttgtttttttgtccctgtcataaaatattttggtgcttcaaaacttgtaccttcattgtacatccttttcttttctccccttgggtcttattataaaagaagacaatgtacgttgtaattaccaaaaagaatagggaaaaacaagaatttcatgactctacctgtggtctatctttaatttcatttcttttgttaaaaataaaacaatgagtatgtttggatactatgaatatgatttgaacttcttaaattgtacgagtgaaggactgaggttaggaaacaacagtagcatgggtcaacgtaatttttaatagtctttttcggggcagtggggaagggtaaattttacttagaaaacatacatgagacttaggccaaggttaatgttttctcaaaggatgtccagttgacccagcaccagcaatagaaaacttacctgtcctacacttaattgctttgtgctttttattgaaaatctgttggctggacttgcatgtgccaatatctgagttaacttgttgcattgcatcatttaactatgtgtctgtcccctgtggccagatcacaatgtcttggttacagtcgctttataataagtcttacatcagggtagacagattcatctcacttttttgtttttcagattgttttagcaagttaagtcaccagctctctttttcattatgtagtagcttttgtgtcctaaatctgattaagttgcactgacacaagttatctccctcaatattttctgttctttcaactggtgaatacaatagctaatctaaatcatttgttgtaagaattcagtaggattgatgtgtaaatatttcaggtaaaaccactctattagtataccactaattcaattcacggttcttgttttgtgtgtctctgggtgatctaataatacagactgtattatacttcttttaatccctttaaaggtgaacgcattctgtcatcctggattgaatctctcgcttttccacctactccttgctgacttgagtcagtgtagaacacgttattacccatagcatttctcatgcctataatcatacctaccttccttattgtctactcttttcacctctttctttctttgatactgtcatagggaactataattagctttcccagtaacaaagctatgcttggtgatgacctagtagagtagaaattgcttcacctgtccaagtacagtgtactttaccttaccacaccatagggaccaggtaaaatatatagaaaatcctgagataatttatctaaatctgagaattgtcttcgaaatttcttttttctcctcttccataaataggaggaaagtcatgattctcaagccattacagattctctgacacttgttaacggaaaattctgatgaggcatgatgagaacttctgcctataaaaatctcactaaagttctgagtcacaaattgttcacatacttcacagtaagcaggcaatccaatgtcaggacagttgtacacctttcttaggttgcctcccctaattggggctgtatttgacatgaggggccagttttgacactttttaaaaccatacacaaggatgcagcactaagtttttgcacataggcaagaatttatcttgtgattagaagttagttatatgttcattaagaaacatgacgaaatctgcagcaaaaattgaatttcataggccattcagtgttctctgcgataattctaattcagaaaaaaattgaatcttggtttaaaaaaattgtaataaaactttaccactggtaa
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Creative Commons Attribution 4.0 International License (CC BY 4.0).
If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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