GENE VIEW

MOUSE GENE INFORMATION [PubMed]
Description clarin 1
Synonyms clarin-1; USH3; A130002D11Rik; Ush3a
Chromosome 3
Genetic Map Distance 28.78 cM
RefSeq Accessions NM_153384; NM_153385; NM_153386; NP_700433; NP_700434; NP_700435
NCBI Entrez Gene 229320 at chr3:58649137-58689134 (mm9) / chr3:58844028-58885212 (mm10)
Ensembl Gene ENSMUSG00000043850
VEGA Gene OTTMUSG00000031611
MGI Gene MGI:2388124
Mouse Protein (4)
UniProt ID Description Length (AA) Predicted # TMs
Q8K445 Clarin-1 232 4
B7ZNE8 Clarin 1 232 4
Q8BYX9 Putative uncharacterized protein 193 3
Q8K444 Clarin 1 172 2
Pfam Domains MORN; PsbN; Oxidored_q4
Mouse alleles (3)
Allele Name Allele Type
Clrn1tm1(KOMP)Vlcg KOMP-Regeneron-Project
Clrn1tm1.1Kuna Targeted (knock-out)
Clrn1tm1Kuna Targeted (Floxed/Frt)
Human Homolog CLRN1 (clarin 1)
Human synonyms RP61; USH3; USH3A
Human cytoband 3q25
Known deafness gene USH3A
Within mapped deafness loci DFNB15
Associated Human Disease in OMIM
Chicken homolog (1)
ENSGALG00000010384 (CLRN1) encoding ENSGALP00000016895
Gene Ontology
Biological Process (6) response to stimulus; visual perception; sensory perception of sound; photoreceptor cell maintenance; sensory perception of light stimulus; equilibrioception
Cellular Component (2) membrane; integral to membrane
FACS-Sorted Hair Cells
Data | Chart
E16a
E16b
P0
P4
P7
P16
Utricle GFP+ cells
86
43
53
181
195
268
Cochlea GFP+ cells
43
26
161
223
221
NA
Utricle GFP- cells
3
13
11
9
5
15
Cochlea GFP- cells
5
2
8
13
3
NA
Analysis
Condition A
Mean A
Condition B
Mean B
Fold Change (B/A)
False Discovery Rate (FDR)
GFP-
8
GFP+
136
16.24
4.21e-5
Utricle
74
Cochlea
70
0.96
1
Embryonic
28
Postnatal
97
3.46
0.066
Adult Cochlear Inner and Outer Hair Cells
Probeset ID IHC (mean ± sd) OHC (mean ± sd) [OHC replicate] Fold Change (OHC/IHC) False Discovery Rate (FDR)
17405446 288.59 ± 13.77 359.09 ± 100.55 [144.88] 1.24 0.501
Otic Progenitor Cells
Data
Growth Factor
Replicate 1
Replicate 2
Replicate 3
Mean
bFGF
33
30
15
21
No bFGF
53
45
39
38
EGF
34
42
37
38
Analysis
Condition A
Mean A
Condition B
Mean B
Fold Change (B/A)
False Discovery Rate (FDR)
bFGF
21
No bFGF
38
1.83
1
bFGF
21
EGF
38
1.81
0.0425
No bFGF
38
EGF
38
0.99
1
Chicken Stereocilium Proteomics
The chicken protein was not reproducibly detected in the chicken stereocilia.
Auditory and Vestibular Ganglion Neurons
Probe set ID: 1438347_at
Age E12 E13 E16 P0 P6 P15
Spiral ganglion
Replicate 1 158.46 115.61 226.23 94.39 5.19 1
Replicate 1 Call M P P M A A
Replicate 2 141.17 78.87 192.93 5.73 25.89 1.99
Replicate 2 Call A A P A A A
Replicate 3 163.52 116.38 190.03 84.31 1.41 15.5
Replicate 3 Call A A P A A A
Replicate 4 91.07 153.23 3.1 3.51
Replicate 4 Call A A A A
Mean 154.38 103.62 175.07 84.42 8.9 5.5
Standard Deviation 11.72 21.44 58.36 60.63 11.43 6.75
Log2 Mean 7.27 6.67 7.37 5.68 2.3 1.69
Log2 Standard Deviation 0.11 0.32 0.59 2.14 1.77 1.68
 
Vestibular ganglion
Replicate 1 71.59 21.76 2 3.62 23.78 8.3
Replicate 1 Call A P A A A A
Replicate 2 74.96 29.66 12.32 3.68 13.05 28.08
Replicate 2 Call A A A A A P
Replicate 3 53.58 25.82 4.93 9.69 5.97 35.86
Replicate 3 Call A A A A A A
Mean 66.71 25.75 6.42 5.66 14.27 24.08
Standard Deviation 11.5 3.95 5.32 3.49 8.97 14.21
Log2 Mean 6.04 4.67 2.31 2.34 3.62 4.34
Log2 Standard Deviation 0.26 0.22 1.31 0.81 1 1.13