2024-04-24 19:43:22, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_145880 3390 bp mRNA linear ROD 20-MAR-2023 DEFINITION Rattus norvegicus LIM homeobox 1 (Lhx1), mRNA. ACCESSION NM_145880 VERSION NM_145880.4 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 3390) AUTHORS Costello I, Nowotschin S, Sun X, Mould AW, Hadjantonakis AK, Bikoff EK and Robertson EJ. TITLE Lhx1 functions together with Otx2, Foxa2, and Ldb1 to govern anterior mesendoderm, node, and midline development JOURNAL Genes Dev 29 (20), 2108-2122 (2015) PUBMED 26494787 REFERENCE 2 (bases 1 to 3390) AUTHORS Boualia SK, Gaitan Y, Murawski I, Nadon R, Gupta IR and Bouchard M. TITLE Vesicoureteral reflux and other urinary tract malformations in mice compound heterozygous for Pax2 and Emx2 JOURNAL PLoS One 6 (6), e21529 (2011) PUBMED 21731775 REFERENCE 3 (bases 1 to 3390) AUTHORS Palmesino E, Rousso DL, Kao TJ, Klar A, Laufer E, Uemura O, Okamoto H, Novitch BG and Kania A. TITLE Foxp1 and lhx1 coordinate motor neuron migration with axon trajectory choice by gating Reelin signalling JOURNAL PLoS Biol 8 (8), e1000446 (2010) PUBMED 20711475 REMARK Publication Status: Online-Only REFERENCE 4 (bases 1 to 3390) AUTHORS Poche RA, Kwan KM, Raven MA, Furuta Y, Reese BE and Behringer RR. TITLE Lim1 is essential for the correct laminar positioning of retinal horizontal cells JOURNAL J Neurosci 27 (51), 14099-14107 (2007) PUBMED 18094249 REFERENCE 5 (bases 1 to 3390) AUTHORS Kittappa R, Chang WW, Awatramani RB and McKay RD. TITLE The foxa2 gene controls the birth and spontaneous degeneration of dopamine neurons in old age JOURNAL PLoS Biol 5 (12), e325 (2007) PUBMED 18076286 REFERENCE 6 (bases 1 to 3390) AUTHORS Shimono A and Behringer RR. TITLE Isolation of novel cDNAs by subtractions between the anterior mesendoderm of single mouse gastrula stage embryos JOURNAL Dev Biol 209 (2), 369-380 (1999) PUBMED 10328927 REFERENCE 7 (bases 1 to 3390) AUTHORS Karavanov AA, Karavanova I, Perantoni A and Dawid IB. TITLE Expression pattern of the rat Lim-1 homeobox gene suggests a dual role during kidney development JOURNAL Int J Dev Biol 42 (1), 61-66 (1998) PUBMED 9496787 REFERENCE 8 (bases 1 to 3390) AUTHORS Karavanov AA, Saint-Jeannet JP, Karavanova I, Taira M and Dawid IB. TITLE The LIM homeodomain protein Lim-1 is widely expressed in neural, neural crest and mesoderm derivatives in vertebrate development JOURNAL Int J Dev Biol 40 (2), 453-461 (1996) PUBMED 8793615 REFERENCE 9 (bases 1 to 3390) AUTHORS Richman DD and Bozzette SA. TITLE The impact of the syncytium-inducing phenotype of human immunodeficiency virus on disease progression JOURNAL J Infect Dis 169 (5), 968-974 (1994) PUBMED 7909549 REFERENCE 10 (bases 1 to 3390) AUTHORS Furuyama T, Inagaki S, Iwahashi Y and Takagi H. TITLE Distribution of Rlim, an LIM homeodomain gene, in the rat brain JOURNAL Neurosci Lett 170 (2), 266-268 (1994) PUBMED 7914684 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JACYVU010000220.1. On Nov 25, 2020 this sequence version replaced NM_145880.3. 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. ##RefSeq-Attributes-START## RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END## COMPLETENESS: complete on the 3' end. PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-770 JACYVU010000220.1 26227706-26228475 c 771-997 JACYVU010000220.1 26225805-26226031 c 998-1275 JACYVU010000220.1 26225436-26225713 c 1276-1441 JACYVU010000220.1 26223982-26224147 c 1442-3390 JACYVU010000220.1 26221687-26223635 c FEATURES Location/Qualifiers source 1..3390 /organism="Rattus norvegicus" /mol_type="mRNA" /strain="BN" /db_xref="taxon:10116" /chromosome="10" /map="10q26" gene 1..3390 /gene="Lhx1" /note="LIM homeobox 1" /db_xref="GeneID:257634" /db_xref="RGD:71074" exon 1..770 /gene="Lhx1" /inference="alignment:Splign:2.1.0" misc_feature 556..558 /gene="Lhx1" /note="upstream in-frame stop codon" CDS 601..1821 /gene="Lhx1" /note="LIM homeobox protein 1; rlim; homeobox protein Lim-1" /codon_start=1 /product="LIM/homeobox protein Lhx1" /protein_id="NP_665887.3" /db_xref="GeneID:257634" /db_xref="RGD:71074" /translation="
MVHCAGCKRPILDRFLLNVLDRAWHVKCVQCCECKCNLTEKCFSREGKLYCKNDFFRCFGTKCAGCAQGISPSDLVRRARSKVFHLNCFTCMMCNKQLSTGEELYIIDENKFVCKEDYLSNSSVAKENSLHSATTGSDPSLSPDSQDPSQDDAKDSESANVSDKEGGSNENDDQNLGAKRRGPRTTIKAKQLETLKAAFAATPKPTRHIREQLAQETGLNMRVIQVWFQNRRSKERRMKQLSALGARRHAFFRSPRRMRPLVDRLEPGELIPNGPFSFYGDYQSEYYGPGGNYDFFPQGPPSSQAQTPVDLPFVPSSGPSGTPLGGLDHPLPGHHPSSEAQRFTDILAHPPGDSPSPEPSLPGPLHSMSAEVFGPSPPFSSLSVNGGASYGNHLSHPPEMNEAAVW"
misc_feature 610..765 /gene="Lhx1" /note="The first LIM domain of Lhx1 (also known as Lim1) and Lhx5; Region: LIM1_Lhx1_Lhx5; cd09367" /db_xref="CDD:188753" misc_feature order(610..612,619..621,673..675,682..684,691..693, 700..702,751..753,760..762) /gene="Lhx1" /note="Zn binding site [ion binding]; other site" /db_xref="CDD:188753" misc_feature 787..954 /gene="Lhx1" /note="The second LIM domain of Lhx1 (also known as Lim1) and Lhx5; Region: LIM2_Lhx1_Lhx5; cd09375" /db_xref="CDD:188761" misc_feature order(787..789,796..798,853..855,862..864,871..873, 880..882,940..942,949..951) /gene="Lhx1" /note="Zn binding site [ion binding]; other site" /db_xref="CDD:188761" misc_feature 982..1167 /gene="Lhx1" /note="propagated from UniProtKB/Swiss-Prot (P63007.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" misc_feature 1084..1086 /gene="Lhx1" /note="Phosphoserine. /evidence=ECO:0007744|PubMed:22673903; propagated from UniProtKB/Swiss-Prot (P63007.1); phosphorylation site" misc_feature order(1141..1155,1159..1161,1210..1212,1228..1230, 1267..1269,1273..1278,1285..1290,1294..1302,1306..1311) /gene="Lhx1" /note="DNA binding site [nucleotide binding]" /db_xref="CDD:238039" misc_feature 1147..1308 /gene="Lhx1" /note="Homeobox domain; Region: Homeobox; pfam00046" /db_xref="CDD:425441" misc_feature order(1147..1149,1156..1158,1276..1278,1285..1290, 1297..1299) /gene="Lhx1" /note="specific DNA base contacts [nucleotide binding]; other site" /db_xref="CDD:238039" misc_feature <1387..>1746 /gene="Lhx1" /note="chromosomal replication initiator protein DnaA; Region: dnaA; cl42516" /db_xref="CDD:455861" misc_feature 1480..1716 /gene="Lhx1" /note="propagated from UniProtKB/Swiss-Prot (P63007.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite" exon 771..997 /gene="Lhx1" /inference="alignment:Splign:2.1.0" exon 998..1275 /gene="Lhx1" /inference="alignment:Splign:2.1.0" exon 1276..1441 /gene="Lhx1" /inference="alignment:Splign:2.1.0" exon 1442..3390 /gene="Lhx1" /inference="alignment:Splign:2.1.0" ORIGIN
ccctcccaggcccagcgcgggtgcccagagcgtcccgactcgcttcaagaagccggcaatgtaggatccaaagcttttctactcccgtgttttctttccgtgttttttttaagggggaaaccgggtggtgggcagtctgacacgcacacaacctgccttcatactctgacaaaagcagatgcactttgacttctgacagctctacctcaagctggagagaacccagctttcccgaatcctgagctctttgcgtcttccttttcgtctgtttccattttatttatttacgtcccgccgcctctctgggtgaccttcactccttcgcgggctttgggcagaagagccgctttcttgcccgattgagactgattttcctcgcctggtgagcggaggtggcgctgctccaccccgctgccccgggactccggggctgccctctaccagcctggtctctccctcttttgatttgacagtacgggtttttgctttcccgagtacagcgggtttcttctttttggaggagctggttgtcttcagaagtcattccctggactctaattgccctgtcgctccgggcctcaccggaccaaaccaaagaccatggtgcactgtgcgggctgcaaaaggcccattctggaccgtttcctcttgaacgtgctggacagggcctggcatgtcaagtgcgtccagtgctgtgaatgtaaatgcaacctgaccgagaagtgcttctcccgggaaggcaagctctactgtaaaaacgacttcttccgatgtttcggtaccaaatgcgcgggttgtgcgcagggcatctctccaagcgatctggttcggagagcgcgaagcaaagtgtttcacctcaactgcttcacctgcatgatgtgtaacaagcagctctccacgggcgaggagctctacatcatcgatgagaacaagttcgtttgtaaagaggattacctgagtaacagcagtgtcgccaaagagaacagcctccactcggccaccacaggcagtgaccctagtttatctccggattcccaagatccatcgcaggatgatgccaaggactctgaaagtgccaacgtatcggataaggaaggtggtagcaatgagaacgatgaccagaacctaggtgccaagcgcaggggaccgcggaccacgatcaaagccaagcaactggagacgttgaaggcagcctttgcagctacgcctaagcccacacgccatatccgcgagcaattggcccaggagactggcctcaacatgcgtgttatccaggtctggttccagaatcgacgctccaaggagcggaggatgaagcagctaagcgcgctgggtgcgcggcgccacgcctttttccgcagtcctcgccggatgcggcctctggtggaccgcttggagccgggcgaactcatccctaacggccccttctccttttatggagattaccagagtgagtactacggtcctggaggcaactacgacttcttcccgcaaggaccaccgtcctcgcaggcccagacaccagtggacctaccctttgtgccatcatctgggccttcggggacgccccttggaggtctggaccacccgctgcctggccaccatccttccagcgaggcgcagcgattcactgacatcctggcacatcccccaggggactcgcctagtcctgagcccagcttgcccgggcctctccactccatgtctgcggaggtctttgggcccagtccacctttctcatctctgtcggtcaatggtggagccagctacgggaatcacttgtctcaccctcctgaaatgaatgaggcagccgtgtggtagcggggtctcgcatgggccacgggagctcgtggttgtacagagacgagcttttatttcagaaaataggagatttaaaaaaaaaaacattaaaaaaaaaaaaaagcaagcctcctgctccacttccttcagcctcggggaccattctttttggggagactggatggcaaaggggtccaaaacaggatccaaatccgcctcgcagtagagctggtatatccacacagcggctgacaaagcgcagaactggggctccggaaggggaattccgaggcatccccaccttcgcgacctggatctggatccatggacagactccaccagcggctcctctggctaacggaagacgtcttagacagcctcgctcagtcctgggcaatgccaggagcctggggagggagacctacctagaagcgctctgccagatgaggaaggaaaagatgtcaggggcgctccagtccagagggctctagttctagttctgggagatcccttcttagtgttgtctcagagttcagcgatgacaacaaactcttaatagcttcagaaacaccgacctgctgtgcatcaggtgggactatatatatatatattttttgtctatctgggtttttgatttttgttttcgccaaaattgcaaaattctaaatgtaaagccctcagtatcaactattctaccttcacacctctctctctctctctctctttctctctctctctctctctctctctctccctctcccctacacacacacacacacacacacacacacacacacacacacacacacacatgctcactcacactcaacttctttccacagtagggtctccagccagacctcttagtaaaatgacttgaacatcacctctacaaaaaagtattctacctttacatgaaagttaaaaaaaaaaaagactattgaactaaaaacagtcaactgtttacgtataatgttaaattcaggagttcagtgttttaataatatatcctgttttgaaacctcttgttcaaaaacaaaatgttttgagcaatcaaccaaaattgttccttttcttttcctgtagatgttctgacaggtttgcagggcttgcggctcactgtgctagtatgtaaaaaggtgttgtttacacgaggcaaagggaaaacatgatattcagacagttgccaaatagaataaactatagcacaattactgtaatggttgcctggcaccagcaacctgagaaagtgttttaaaaaaaaagtgttacaaggtttaaaaaaaaaacatctttgctaacttttagtcctgttaaacattcatgaaattgttaatatgacttatatagacccacacaggttttatttttgtgtctttaaaataaaagtccaaaatatttaaattttatggtcaaatatgcagtcaacagctgctactttttcctttatatattaaatttctcatatgtcttttattgttctaataaacctaagcttgtgtgacctccagtgcatattagaccattcactgtatgaaagaaaacatgttgaataaatttgtgagtttttaataaaaatagaaaacctga
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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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