LOC100910732 serine/threonine-protein kinase PAK 2-like [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: LOC100910732provided by RGD
Full Name: serine/threonine-protein kinase PAK 2-likeprovided by RGD
Primary source: RGD:6497075
Gene type: protein coding
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Annotation information: Note: LOC100910732 is annotated on Rnor_6.0 but not on Rn_Celera, while Pak2 (GeneID: 29432) is annotated on both assemblies (Annotation Release 105). Annotation of LOC100910732 likely represents a duplicate placement of Pak2 on Rnor_6.0. Additionally, the annotation of gene neighbor LOC103689978 appears to be the result of duplicate placement of this gene. Other gene neighbors Pigzl1 and Ppp1r2 are each annotated with the same GeneIDs at two separate locations nearby. These duplicate annotations while present on Rnor_6.0 are not present in Rn_Celera, and are not supported by mouse or human sytnenic regions. BLASTing LOC100910732 XM_003751066.2 against the rat genome shows high sequence identity (100% identity) with NC_005110.4 on Rnor_6.0 where both LOC100910732 and Pak2 are annotated (Annotation Release 105, but high sequence identity (100%) to only a single location on Rn_ Celera corresponding to where Pak2 is annotated. BLASTing Pak2 NM_053306.3 against the rat genome shows best hits to NC_005110.4 (99% sequence identity) on Rnor_6.0 where both LOC100910732 and Pak2 are annotated (Annotation Release 105), but high sequence identity to only a single location on Rn_ Celera corresponding to where Pak2 is annotated. 2-sequene BLAST of Pak2 NM_053306.3 against LOC100910732 XM_003751066.2 shows high sequence identity (99% coverage, 99% identity). BLASTing component AABR07034470.1 (that underlies Pak2, Senp5, Pigz and Pigzl1) against the rat genome shows high sequence identity to NC_005110.4 on Rnor_6.0 (Annotation Release 105) where the component is currently placed (hitting itself), as well as to regions where duplicate placements LOC100910732, LOC103689978 and others are placed. 2-sequence BLAST of component AABR07034444.1 that underlies part of LOC100910732 against AABR07034470.1 (that underlies Pak2) shows 99% sequence identity across a ~23 kb stretch. [25 Mar 2015]
Expression: Biased expression in Spleen (RPKM 168.0), Thymus (RPKM 147.6) and 9 other tissues See more
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Genomic context

Location:: 11q22

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
106	latest, but not current	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (71959058..72021252)

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_005110.4 Chromosome 11 Reference Rnor_6.0 Primary Assembly

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016