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Protein

SLIT and NTRK-like protein 6

Gene

Slitrk6

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Regulator of neurite outgrowth required for normal hearing and vision.2 Publications

GO - Biological processi

Keywordsi

Biological processHearing, Sensory transduction, Vision

Enzyme and pathway databases

ReactomeiR-MMU-388844 Receptor-type tyrosine-protein phosphatases

Names & Taxonomyi

Protein namesi
Recommended name:
SLIT and NTRK-like protein 6
Gene namesi
Name:Slitrk6
Synonyms:Sltk6
OrganismiMus musculus (Mouse)Imported
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 14

Organism-specific databases

MGIiMGI:2443198 Slitrk6

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini23 – 609ExtracellularSequence analysisAdd BLAST587
Transmembranei610 – 630HelicalSequence analysisAdd BLAST21
Topological domaini631 – 840CytoplasmicSequence analysisAdd BLAST210

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Disruption phenotypei

Male and female mice grow without showing any external abnormalities and are fertile but display auditory deficits. In the developing inner ear, mice show pronounced reduction of cochlear innervation, despite normal gross morphology and general organization of the organ of Corti (PubMed:19936227). Adult mice have reduced startle response and impaired auditory brainstem responses consistent with mid-frequency range hearing loss (PubMed:21298075). Retinas in postnatal development display a delay in synaptogenesis (PubMed:23543054).3 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 18Sequence analysisAdd BLAST18
ChainiPRO_000003268419 – 840SLIT and NTRK-like protein 6Sequence analysisAdd BLAST822

Proteomic databases

PaxDbiQ8C110
PRIDEiQ8C110

PTM databases

iPTMnetiQ8C110
PhosphoSitePlusiQ8C110

Expressioni

Tissue specificityi

In the embryo, expressed in otic cyst, lateral trunk epidermis and underlying mesodermal tissue, limb bud, maxillary process, cochlea, retina, tongue, tooth primordium, central nervous system, and primordia of visceral organs including lung, gastrointestinal tract and pancreas. In the central nervous system, expressed primarily in dorsal thalamus, cerebellum and medulla.1 Publication

Developmental stagei

During inner ear development, detected early in the otic vesicle, and later in cochlear and vestibular sensory epithelia. Present in the presumptive organ of Corti by E14.5, and then confined to the supporting cell types at later stages of embryonic development and at the newborn. In the vestibular sensory epithelia, present at the lumenal surface. However, it is detected in the non-hair cell region, presumably in the lumenal processes of the supporting cells. Transiently expressed in the spiral and vestibular ganglion neurons (at protein level) (PubMed:19936227). First expressed at E8.5. In the newborn, broadly detected in neural retina. Later, in P10 retina, expression is enhanced in the inner nuclear and outer plexiform layers. Expression in retina decreases as development proceeded, and is detected in the inner nuclear layer and in a subset of cells in the ganglion cell layer of adults (PubMed:23543054).3 Publications

Gene expression databases

BgeeiENSMUSG00000045871 Expressed in 147 organ(s), highest expression level in utricle of membranous labyrinth
CleanExiMM_SLITRK6
ExpressionAtlasiQ8C110 baseline and differential
GenevisibleiQ8C110 MM

Interactioni

Protein-protein interaction databases

IntActiQ8C110, 1 interactor
STRINGi10090.ENSMUSP00000077492

Structurei

3D structure databases

ProteinModelPortaliQ8C110
SMRiQ8C110
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini22 – 67LRRNT 1Add BLAST46
Repeati89 – 110LRR 1Add BLAST22
Repeati113 – 134LRR 2Add BLAST22
Repeati137 – 158LRR 3Add BLAST22
Repeati161 – 182LRR 4Add BLAST22
Repeati184 – 205LRR 5Add BLAST22
Domaini218 – 269LRRCT 1Add BLAST52
Domaini319 – 360LRRNT 2Add BLAST42
Repeati363 – 384LRR 6Add BLAST22
Repeati387 – 408LRR 7Add BLAST22
Repeati411 – 432LRR 8Add BLAST22
Repeati435 – 456LRR 9Add BLAST22
Repeati459 – 480LRR 10Add BLAST22
Repeati482 – 503LRR 11Add BLAST22
Domaini516 – 567LRRCT 2Add BLAST52

Sequence similaritiesi

Belongs to the SLITRK family.Curated

Keywords - Domaini

Leucine-rich repeat, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IGN5 Eukaryota
ENOG4111D19 LUCA
GeneTreeiENSGT00930000150809
HOGENOMiHOG000290667
HOVERGENiHBG056407
InParanoidiQ8C110
OMAiANLHAEP
OrthoDBiEOG091G02AI
PhylomeDBiQ8C110
TreeFamiTF326378

Family and domain databases

Gene3Di3.80.10.10, 2 hits
InterProiView protein in InterPro
IPR000483 Cys-rich_flank_reg_C
IPR001611 Leu-rich_rpt
IPR003591 Leu-rich_rpt_typical-subtyp
IPR032675 LRR_dom_sf
PfamiView protein in Pfam
PF13855 LRR_8, 2 hits
SMARTiView protein in SMART
SM00369 LRR_TYP, 9 hits
SM00082 LRRCT, 2 hits
PROSITEiView protein in PROSITE
PS51450 LRR, 10 hits

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q8C110-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKLWTYLLYP SLLACLSLQS QSPMPSVRGS CDTLCNCEEK DGIMIINCEE
60 70 80 90 100
KGINKLSQIS VPPSRPFHLS LLNNGLTMLH TNDFSGLTNA LSIHLGFNNI
110 120 130 140 150
ADIETGAFNG LGLLKQLHIN HNSLEILKED TFHGLENLEF LQADNNFITI
160 170 180 190 200
IEPSAFSKLN RLKVLILNDN AIESLPPNIF RFVPLTHLDL RGNQLQTLPY
210 220 230 240 250
VGFLEHIGRI LDLQLEDNKW ACNCELLQLK NWLENMPPQS IIGDVICYSP
260 270 280 290 300
PPFKGSVLSR LKKESFCPTP PVYEEHEDPS GSLLAITSST SDSRLSSKNT
310 320 330 340 350
SILKQPTKAP GLIPYLTKPS TQLPVPYCPI PCNCKVLSPS GLLIHCQERN
360 370 380 390 400
IESLSDLQPP PHNPRKLILA GNIIHTLMKS DLTDYFTLEM LHLGNNRIEV
410 420 430 440 450
LEEGSFMNLT RLQKLYLNGN HLTKLNKGMF LGLHSLEYLY LEYNAVKEIL
460 470 480 490 500
PGTFNPMPKL KVLYLNNNLL QVLPAHIFLG IPLTRVNLKT NQFTHLPVSN
510 520 530 540 550
ILDDLDFLIQ IDLEDNPWDC SCDLVGLQQW IHKLGKGTMT DDILCTSPGH
560 570 580 590 600
LDKKELKALN SDLLCPGLVN NPSMPTQTTY VIVTSPTVAA DTASTLFSSL
610 620 630 640 650
TDAVPLSVLI LGLLIVFITI VFCAAGIVVF VLHRRRRYKK KKVEEQLRDN
660 670 680 690 700
SPVHLQYSMY GHKTTHHTTE RPSSSLYEQH MVSPMVHVYR SPSFGPKHLE
710 720 730 740 750
EVEERNDKEG NDAKHLQRSL LERENHSPLT GSNMKYKTTD QSTDFISFQD
760 770 780 790 800
ASLLYRNILE KERELQQLGI TEYLRKNLAQ LQPEVEVNYP GAHEELKLME
810 820 830 840
TLMYSRPRKV LVEQTKNEYF ELKANLHAEP DYLEVLEQQT
Length:840
Mass (Da):95,056
Last modified:March 1, 2003 - v1
Checksum:i9D812FADCFF43097
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB097575 Genomic DNA Translation: BAC67209.1
AK029275 mRNA Translation: BAC26368.1
CCDSiCCDS27326.1
RefSeqiNP_780708.1, NM_175499.4
UniGeneiMm.49728

Genome annotation databases

EnsembliENSMUST00000078386; ENSMUSP00000077492; ENSMUSG00000045871
GeneIDi239250
KEGGimmu:239250
UCSCiuc007uyd.2 mouse

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB097575 Genomic DNA Translation: BAC67209.1
AK029275 mRNA Translation: BAC26368.1
CCDSiCCDS27326.1
RefSeqiNP_780708.1, NM_175499.4
UniGeneiMm.49728

3D structure databases

ProteinModelPortaliQ8C110
SMRiQ8C110
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ8C110, 1 interactor
STRINGi10090.ENSMUSP00000077492

PTM databases

iPTMnetiQ8C110
PhosphoSitePlusiQ8C110

Proteomic databases

PaxDbiQ8C110
PRIDEiQ8C110

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000078386; ENSMUSP00000077492; ENSMUSG00000045871
GeneIDi239250
KEGGimmu:239250
UCSCiuc007uyd.2 mouse

Organism-specific databases

CTDi84189
MGIiMGI:2443198 Slitrk6

Phylogenomic databases

eggNOGiENOG410IGN5 Eukaryota
ENOG4111D19 LUCA
GeneTreeiENSGT00930000150809
HOGENOMiHOG000290667
HOVERGENiHBG056407
InParanoidiQ8C110
OMAiANLHAEP
OrthoDBiEOG091G02AI
PhylomeDBiQ8C110
TreeFamiTF326378

Enzyme and pathway databases

ReactomeiR-MMU-388844 Receptor-type tyrosine-protein phosphatases

Miscellaneous databases

PROiPR:Q8C110
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000045871 Expressed in 147 organ(s), highest expression level in utricle of membranous labyrinth
CleanExiMM_SLITRK6
ExpressionAtlasiQ8C110 baseline and differential
GenevisibleiQ8C110 MM

Family and domain databases

Gene3Di3.80.10.10, 2 hits
InterProiView protein in InterPro
IPR000483 Cys-rich_flank_reg_C
IPR001611 Leu-rich_rpt
IPR003591 Leu-rich_rpt_typical-subtyp
IPR032675 LRR_dom_sf
PfamiView protein in Pfam
PF13855 LRR_8, 2 hits
SMARTiView protein in SMART
SM00369 LRR_TYP, 9 hits
SM00082 LRRCT, 2 hits
PROSITEiView protein in PROSITE
PS51450 LRR, 10 hits
ProtoNetiSearch...

Entry informationi

Entry nameiSLIK6_MOUSE
AccessioniPrimary (citable) accession number: Q8C110
Secondary accession number(s): Q8BLL0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 13, 2004
Last sequence update: March 1, 2003
Last modified: November 7, 2018
This is version 128 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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