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Protein

SLIT and NTRK-like protein 6

Gene

Slitrk6

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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

GO - Biological processi

  • adult locomotory behavior Source: MGI
  • auditory behavior Source: MGI
  • auditory receptor cell morphogenesis Source: MGI
  • axonogenesis Source: MGI
  • camera-type eye development Source: MGI
  • cochlea development Source: MGI
  • inner ear morphogenesis Source: MGI
  • innervation Source: MGI
  • lens development in camera-type eye Source: MGI
  • linear vestibuloocular reflex Source: MGI
  • multicellular organism growth Source: MGI
  • neuron projection morphogenesis Source: MGI
  • positive regulation of synapse assembly Source: MGI
  • sensory perception of sound Source: UniProtKB-KW
  • startle response Source: MGI
  • synapse assembly Source: MGI
  • vestibular reflex Source: MGI
  • vestibulocochlear nerve development Source: MGI
  • visual perception Source: MGI
Complete GO annotation...

Keywords - Biological processi

Hearing, Sensory transduction, Vision

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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 14

Organism-specific databases

MGIiMGI:2443198. Slitrk6.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini23 – 609587ExtracellularSequence analysisAdd
BLAST
Transmembranei610 – 63021HelicalSequence analysisAdd
BLAST
Topological domaini631 – 840210CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • cell periphery Source: MGI
  • cell surface Source: MGI
  • integral component of membrane Source: MGI
  • integral component of plasma membrane Source: UniProtKB
Complete GO annotation...

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)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1818Sequence analysisAdd
BLAST
Chaini19 – 840822SLIT and NTRK-like protein 6Sequence analysisPRO_0000032684Add
BLAST

Proteomic databases

MaxQBiQ8C110.
PaxDbiQ8C110.
PRIDEiQ8C110.

PTM databases

iPTMnetiQ8C110.
PhosphoSiteiQ8C110.

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.
CleanExiMM_SLITRK6.
ExpressionAtlasiQ8C110. baseline and differential.
GenevisibleiQ8C110. MM.

Interactioni

Protein-protein interaction databases

IntActiQ8C110. 1 interaction.
STRINGi10090.ENSMUSP00000077492.

Structurei

3D structure databases

ProteinModelPortaliQ8C110.
SMRiQ8C110. Positions 31-566.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini22 – 6746LRRNT 1Add
BLAST
Repeati89 – 11022LRR 1Add
BLAST
Repeati113 – 13422LRR 2Add
BLAST
Repeati137 – 15822LRR 3Add
BLAST
Repeati161 – 18222LRR 4Add
BLAST
Repeati184 – 20522LRR 5Add
BLAST
Domaini218 – 26952LRRCT 1Add
BLAST
Domaini319 – 36042LRRNT 2Add
BLAST
Repeati363 – 38422LRR 6Add
BLAST
Repeati387 – 40822LRR 7Add
BLAST
Repeati411 – 43222LRR 8Add
BLAST
Repeati435 – 45622LRR 9Add
BLAST
Repeati459 – 48022LRR 10Add
BLAST
Repeati482 – 50322LRR 11Add
BLAST
Domaini516 – 56752LRRCT 2Add
BLAST

Sequence similaritiesi

Belongs to the SLITRK family.Curated
Contains 11 LRR (leucine-rich) repeats.Curated
Contains 2 LRRCT domains.Curated
Contains 2 LRRNT domains.Curated

Keywords - Domaini

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

Phylogenomic databases

eggNOGiENOG410IGN5. Eukaryota.
ENOG4111D19. LUCA.
GeneTreeiENSGT00790000122963.
HOGENOMiHOG000290667.
HOVERGENiHBG056407.
InParanoidiQ8C110.
OMAiLCTSPGH.
OrthoDBiEOG091G02AI.
PhylomeDBiQ8C110.
TreeFamiTF326378.

Family and domain databases

Gene3Di3.80.10.10. 4 hits.
InterProiIPR000483. Cys-rich_flank_reg_C.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
[Graphical view]
PfamiPF13855. LRR_8. 2 hits.
[Graphical view]
SMARTiSM00369. LRR_TYP. 9 hits.
SM00082. LRRCT. 2 hits.
[Graphical view]
SUPFAMiSSF52058. SSF52058. 2 hits.
PROSITEiPS51450. LRR. 10 hits.
[Graphical view]

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.

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. Positions 31-566.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ8C110. 1 interaction.
STRINGi10090.ENSMUSP00000077492.

PTM databases

iPTMnetiQ8C110.
PhosphoSiteiQ8C110.

Proteomic databases

MaxQBiQ8C110.
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.
GeneTreeiENSGT00790000122963.
HOGENOMiHOG000290667.
HOVERGENiHBG056407.
InParanoidiQ8C110.
OMAiLCTSPGH.
OrthoDBiEOG091G02AI.
PhylomeDBiQ8C110.
TreeFamiTF326378.

Miscellaneous databases

PROiQ8C110.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000045871.
CleanExiMM_SLITRK6.
ExpressionAtlasiQ8C110. baseline and differential.
GenevisibleiQ8C110. MM.

Family and domain databases

Gene3Di3.80.10.10. 4 hits.
InterProiIPR000483. Cys-rich_flank_reg_C.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
[Graphical view]
PfamiPF13855. LRR_8. 2 hits.
[Graphical view]
SMARTiSM00369. LRR_TYP. 9 hits.
SM00082. LRRCT. 2 hits.
[Graphical view]
SUPFAMiSSF52058. SSF52058. 2 hits.
PROSITEiPS51450. LRR. 10 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSLIK6_MOUSE
AccessioniPrimary (citable) accession number: Q8C110
Secondary accession number(s): Q8BLL0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 13, 2004
Last sequence update: March 1, 2003
Last modified: September 7, 2016
This is version 113 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.