2024-05-17 02:51:30, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001168219 4518 bp mRNA linear ROD 07-AUG-2023 DEFINITION Mus musculus lysine rich nucleolar protein 1 (Knop1), transcript variant 3, mRNA. ACCESSION NM_001168219 VERSION NM_001168219.2 KEYWORDS RefSeq. SOURCE Mus musculus (house mouse) ORGANISM Mus musculus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus. REFERENCE 1 (bases 1 to 4518) AUTHORS Dickinson ME, Flenniken AM, Ji X, Teboul L, Wong MD, White JK, Meehan TF, Weninger WJ, Westerberg H, Adissu H, Baker CN, Bower L, Brown JM, Caddle LB, Chiani F, Clary D, Cleak J, Daly MJ, Denegre JM, Doe B, Dolan ME, Edie SM, Fuchs H, Gailus-Durner V, Galli A, Gambadoro A, Gallegos J, Guo S, Horner NR, Hsu CW, Johnson SJ, Kalaga S, Keith LC, Lanoue L, Lawson TN, Lek M, Mark M, Marschall S, Mason J, McElwee ML, Newbigging S, Nutter LM, Peterson KA, Ramirez-Solis R, Rowland DJ, Ryder E, Samocha KE, Seavitt JR, Selloum M, Szoke-Kovacs Z, Tamura M, Trainor AG, Tudose I, Wakana S, Warren J, Wendling O, West DB, Wong L, Yoshiki A, MacArthur DG, Tocchini-Valentini GP, Gao X, Flicek P, Bradley A, Skarnes WC, Justice MJ, Parkinson HE, Moore M, Wells S, Braun RE, Svenson KL, de Angelis MH, Herault Y, Mohun T, Mallon AM, Henkelman RM, Brown SD, Adams DJ, Lloyd KC, McKerlie C, Beaudet AL, Bucan M and Murray SA. CONSRTM International Mouse Phenotyping Consortium; Jackson Laboratory; Infrastructure Nationale PHENOMIN, Institut Clinique de la Souris (ICS); Charles River Laboratories; MRC Harwell; Toronto Centre for Phenogenomics; Wellcome Trust Sanger Institute; RIKEN BioResource Center TITLE High-throughput discovery of novel developmental phenotypes JOURNAL Nature 537 (7621), 508-514 (2016) PUBMED 27626380 REMARK Erratum:[Nature. 2017 Nov 16;551(7680):398. PMID: 29144450] REFERENCE 2 (bases 1 to 4518) AUTHORS Koscielny G, Yaikhom G, Iyer V, Meehan TF, Morgan H, Atienza-Herrero J, Blake A, Chen CK, Easty R, Di Fenza A, Fiegel T, Grifiths M, Horne A, Karp NA, Kurbatova N, Mason JC, Matthews P, Oakley DJ, Qazi A, Regnart J, Retha A, Santos LA, Sneddon DJ, Warren J, Westerberg H, Wilson RJ, Melvin DG, Smedley D, Brown SD, Flicek P, Skarnes WC, Mallon AM and Parkinson H. TITLE The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data JOURNAL Nucleic Acids Res 42 (Database issue), D802-D809 (2014) PUBMED 24194600 REFERENCE 3 (bases 1 to 4518) AUTHORS Valerius MT and McMahon AP. TITLE Transcriptional profiling of Wnt4 mutant mouse kidneys identifies genes expressed during nephron formation JOURNAL Gene Expr Patterns 8 (5), 297-306 (2008) PUBMED 18346943 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from AC138717.2 and AC165086.4. On Jan 14, 2022 this sequence version replaced NM_001168219.1. Transcript Variant: This variant (3) uses an alternate in-frame splice site and lacks an exon in the middle portion of the coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1. ##Evidence-Data-START## Transcript exon combination :: AK083845.1, SRR11927932.2642787.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMN01164134, SAMN01164135 [ECO:0000348] ##Evidence-Data-END## COMPLETENESS: full length. PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-62 AC138717.2 105528-105589 c 63-514 AC138717.2 102794-103245 c 515-640 AC138717.2 98354-98479 c 641-4518 AC165086.4 1524-5401 FEATURES Location/Qualifiers source 1..4518 /organism="Mus musculus" /mol_type="mRNA" /strain="C57BL/6" /db_xref="taxon:10090" /chromosome="7" /map="7 63.66 cM" gene 1..4518 /gene="Knop1" /gene_synonym="2310008H09Rik; Tsg118" /note="lysine rich nucleolar protein 1" /db_xref="GeneID:66356" /db_xref="MGI:MGI:1913606" exon 1..62 /gene="Knop1" /gene_synonym="2310008H09Rik; Tsg118" /inference="alignment:Splign:2.1.0" exon 63..514 /gene="Knop1" /gene_synonym="2310008H09Rik; Tsg118" /inference="alignment:Splign:2.1.0" CDS 65..952 /gene="Knop1" /gene_synonym="2310008H09Rik; Tsg118" /note="isoform 3 is encoded by transcript variant 3; protein C16orf88 homolog; testis-specific gene 118 protein" /codon_start=1 /product="lysine-rich nucleolar protein 1 isoform 3" /protein_id="NP_001161691.2" /db_xref="CCDS:CCDS52376.1" /db_xref="GeneID:66356" /db_xref="MGI:MGI:1913606" /translation="
MVSKTQKADLGPQLPEKKKKKKKKKRVVANVSEPETQYSVLNSNDYFIDASPPRATSPSNNVDEVQIPEISLSKRKKKKKSCSTHLEECLGAEPTRARQKKSPSPRRQALEQSAEGLIREKKKKRRKSLSKAASQGSGLKTSPDPKHAKEVRRKALQEEIDRESGKTEASEPKKWTVGLSVKTEASEPKKWTGTQFGQWDTAGFENEEQKLKFLKLMGGFKHLSPSFSRPPSMTIRSNMALDKKSSEMLQQSLQQDYDRAMSWKYSHGAGLGFNSEARKVFYIDRNASKSIKLQD"
misc_feature 659..880 /gene="Knop1" /gene_synonym="2310008H09Rik; Tsg118" /note="Small acidic protein family; Region: SMAP; pfam15477" /db_xref="CDD:434743" exon 515..640 /gene="Knop1" /gene_synonym="2310008H09Rik; Tsg118" /inference="alignment:Splign:2.1.0" exon 641..4518 /gene="Knop1" /gene_synonym="2310008H09Rik; Tsg118" /inference="alignment:Splign:2.1.0" ORIGIN
gacttccggatcgcggctgcgcggctgctcacgcggggacgcttggcctgctagcgaaccagtaatggtcagcaagacccagaaagcagacctgggcccacaactcccagagaagaagaaaaagaagaagaagaaaaagagagtggttgcaaatgtctcagaaccagagactcaatactcagtcttaaacagtaatgattattttatagacgcttctcctccgagggccacgtccccttctaacaatgtggatgaggtgcagatccccgagatatcactgagcaagagaaagaagaaaaaaaagtcctgtagcactcacttggaggagtgcctgggggctgagcctacacgggcaaggcagaaaaagtcacctagccctagaaggcaggcccttgagcagtcagcagaaggcctcatcagagagaagaaaaagaagaggcggaagtccttatcaaaggctgcctcccaaggctcagggctgaagacctccccagaccccaagcatgccaaggaggtgagacggaaggccttgcaagaagagattgatcgtgagtcgggcaagacagaggcttcagaacccaaaaagtggacagtgggtttgtcggtcaagacagaggcttcagaacccaaaaagtggacgggaacccagtttggccagtgggatactgccggctttgaaaatgaagaacagaagctaaaattcctgaagcttatgggtggctttaagcatctgtccccgtcattcagccgccctcccagcatgactatcaggtccaacatggccctggacaaaaagtcttcagaaatgctccagcagagtctgcagcaggactatgaccgggccatgagctggaagtacagccacggggctggcctgggctttaactctgaggcccgaaaggtcttctacattgaccggaatgcctccaagtctatcaagttgcaagattaaatattattgtcttgttcttcaaactgcatttcttgatcagttgcatccgtcaagttggcttgaaatagtcacctgcagttattgaggaccaataggaattgctaaagcctcctattttctatgttaaacattccacctccgggtgacagtattttaatagtagctagcagttgttggcacgtggagggtcctgactattttccttgcattgttacactaattatggaatgggtgctgttctcatctctatcaagttcagggataaataaagtaattaaacggcctagggtcaccttccgttaagtgccatcaagagtacatcacccagagtcactcaattatcagtgcagaaagcaagtgatatgccatgacttgcaagtttgttttccttctcccttatcaggaggcaggtgtggtgcagcaggcagacgtggccagtacctctgagctggcttctttccagccgtcctccttccatctgactgctgtgcttggatttgatgctgctgtattggctggatctcaaggcattttggacagtaggtaatcctgcgtatggacccatgacagattctcagcagcatgttttgtgtttgtgttcactagacagaagaccttggacacttgtgtgatgaaatcaaacatataaggggtggagaaaaagatactttgctgcaggcaccataccctcccacccctccctcccaaatcacagcaatcttcatggagctcctgatacagagacccatgtgacatgattttctctcccaccagctattggcagtctggtatcaaggttcagagaaggttactttcctgttttggcctgatttctcacaggcagaaacactgggtggggatggaggtgtttgatgctgcactcagccaggacattcattcatccttccagcaccgtcatcagtgttgatgccttcatgctgctaagaagatgagagacaattcccagcattccagagatgggagaaaaccctctctacaactaaagaaacttccggcagtccctcagggaacctgtgatggcgtcattcagctttgtagtttttcctgtatcagcccccttggtaaggagatgcccctcaggccagccagggagagggtgaggtgtgcagtactgccaaatgggcagcagaggtgttgctgtgccccctaccttgttcctgtcctgtgggcataggccatatgtatggcaaagacctgtttacaccactttcctggaatgaacttggcttctcatcaattcagcctcaagattcagaaaagaccacttccagtcacgtcaatggcagaattctgcatttgagtcaacttccagacaaatctccctcggccttggtgaactctgggaaccatctgcataactccaatagcttgtgttccccacaagtcacattccagcctaagtgtctcagctcatcaaaaacttgcacatggcaatcttacgggtggtagatggttttctatcttatgtcacatatgccttggaagctgtcatcaaagtgtgagagccagatctttttcttagctgttacacatacctcagtgctgaaagacttgattttgtagcttggtacctcagcgttgacttaggtgctccactagcccacctttctctaagaattgaagtctgtagtctatctccaaggcactggaggtagggtcagtgatctaacacaaccttgaacttgactgattctctcaggcatttcttaccagcttggtggcacttaagcaatatccttgtccaacagtcaccaaaatctcatgattcttaacacttgtgcttgagctgatttctgtgctatatctgcttgggcccatgaggccctgccctgaggctacatgtacaaccagactaacctgtgaaaaggctctctcagacacaggtgtccctgctcttagtactacttgggttatggtaggcaggacacacacatacccagcagaagggaaattaaagtcactaatcacatgctgctattattattgttgttgttgtttttttgagacagggtttctttgtgtagccctgaagaccataccatgctagccttaaaagtcacagcgattcacctgtctgcctcctggagtgctaggattaaaggtatacatcactgctgcctggcttccagccaccactggctatcagatagatttgaaatcagatccttgataacctgagcaggttcttttcttcacagttccctaactgatacgtagcagaagatttagtgtggaagacacttgggaaggaaaaggccacaagccaagatcacaggcaacgtacagaagccatgcagcatctctttccaccagagtacccacaaaagaacttagacatggggataccttgacctagcccagagaaaccagtgagttctgaccaacagcagtcaagacagtaaaaccacaggaagtcactgtgcttgtaatttcttaaaggaataagaaccaggaatcactcacagatggacatgaggcatcctgtttttcatttcctaaaagtctctttacatgtccttctcaggggaagtagatgctgtttgtggaggcgggcttcaaagactggactgtcagtaacacttctgcccaggtcagcagactgttgcaggagccccgtggtatgtgtacccagtgtgaggataagccgaggttaacacaagcagtgggaattccccaggccagtgtaagctgcttatgctgttatcctgggcagccttgaggcaggagagtaacgtacaaaggattatttatgaatttgccagttatttttgaaagaattagcatcacagtgaaagtgacataaaataattttagtagaaacagtttggtgaaataaaggccatttgggagtatttgaacagcaccatagtgcattctgggttctggcatgttcacagcaggaggaaaggcattttttagcatctggtttttgtttttgagactggggctcatatatcccagaccagcttcaaacatgtaactggggaccttgatcagatcttgatcctcctgtctctacctcctaactactgccgttctaggtctgcaccttggcactctgtcttatgtggggtcttgtgtctgccaggcaagcattccactgactgagccatatccttcgcctcatctgctcatttttggtttggtttttgttttaagaaattgtatcaattccttgggctggagggtattctcatcagattggccccaaatgtatatacaacagtaaccctgctctttgttgttgttgttttgttttgtttgttttttcgagacagggtttctctgtgtagccctgactgtcctggaactcactctgtagaccaacctgaccttgaactcagaaatccacctgcctctgcctctgcctcccaagtgctgggattaaaggcgtgcaccgccaccacctggctgtaactctgctcttaaactagtaaagacacaagctgtgtgtgtatgtgtgtgtgagacttaataacttctactttctgaggttagtcatgtatagtatttcagataaataaaatccatgcctaaagcacaaa
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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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