Mutagenetix > Incidental Mutation

Incidental Mutation 'R1987:Sectm1a'

222700

Institutional Source

Beutler Lab

Gene Symbol

Sectm1a

Ensembl Gene

ENSMUSG00000025165

Gene Name

secreted and transmembrane 1A

Synonyms

MMRRC Submission

039999-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.051) question?

Stock #

R1987 (G1)

Quality Score

209

Status

Not validated

Chromosome

Chromosomal Location

120958233-120972046 bp(-) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to T at 120960506 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Isoleucine to Asparagine at position 103 (I103N)

Ref Sequence

ENSEMBL: ENSMUSP00000026162 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000026162] [ENSMUST00000100126] [ENSMUST00000106119] [ENSMUST00000106120]

AlphaFold

no structure available at present

Predicted Effect

probably damaging
Transcript: ENSMUST00000026162
AA Change: I103N

PolyPhen 2 Score 0.997 (Sensitivity: 0.41; Specificity: 0.98)

SMART Domains

Protein: ENSMUSP00000026162
Gene: ENSMUSG00000025165
AA Change: I103N

Domain	Start	End	E-Value	Type
signal peptide	1	27	N/A	INTRINSIC
Blast:IG	39	133	2e-64	BLAST
SCOP:d1biha2	42	114	3e-3	SMART
transmembrane domain	165	187	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000100126

SMART Domains

Protein: ENSMUSP00000097702
Gene: ENSMUSG00000025165

Domain	Start	End	E-Value	Type
signal peptide	1	27	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000106119

SMART Domains

Protein: ENSMUSP00000101725
Gene: ENSMUSG00000025165

Domain	Start	End	E-Value	Type
signal peptide	1	27	N/A	INTRINSIC
transmembrane domain	62	84	N/A	INTRINSIC

Predicted Effect

probably damaging
Transcript: ENSMUST00000106120
AA Change: I103N

PolyPhen 2 Score 0.993 (Sensitivity: 0.70; Specificity: 0.97)

SMART Domains

Protein: ENSMUSP00000101726
Gene: ENSMUSG00000025165
AA Change: I103N

Domain	Start	End	E-Value	Type
signal peptide	1	27	N/A	INTRINSIC
Blast:IG	39	133	2e-64	BLAST
SCOP:d1biha2	42	114	2e-3	SMART
transmembrane domain	147	169	N/A	INTRINSIC

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000149917

Coding Region Coverage

1x: 99.2%
3x: 98.4%
10x: 96.4%
20x: 92.6%

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a transmembrane and secreted protein with characteristics of a type 1a transmembrane protein. It is found in a perinuclear Golgi-like pattern and thought to be involved in hematopoietic and/or immune system processes. [provided by RefSeq, Jul 2008]

Allele List at MGI

Other mutations in this stock

Total: 79 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Ahnak	A	T	19: 8,992,615 (GRCm39)	D4633V	probably damaging	Het
Akap6	T	C	12: 53,187,578 (GRCm39)	F1664S	possibly damaging	Het
Arhgef28	T	C	13: 98,103,604 (GRCm39)	M803V	probably benign	Het
Bltp1	T	A	3: 37,008,134 (GRCm39)		probably null	Het
Bltp2	A	T	11: 78,158,993 (GRCm39)	Q433L	probably damaging	Het
Ccdc73	T	A	2: 104,761,390 (GRCm39)	L130*	probably null	Het
Ccdc73	A	G	2: 104,829,504 (GRCm39)	E1059G	probably damaging	Het
Ccer2	A	C	7: 28,456,708 (GRCm39)	S151R	possibly damaging	Het
Cep128	T	A	12: 91,197,603 (GRCm39)	H406L	probably benign	Het
Cep135	A	G	5: 76,745,275 (GRCm39)	D229G	probably benign	Het
Cpvl	T	A	6: 53,931,596 (GRCm39)	D103V	probably benign	Het
Crppa	T	A	12: 36,571,995 (GRCm39)	L301Q	probably damaging	Het
Cstdc6	C	A	16: 36,142,194 (GRCm39)	G61C	probably damaging	Het
Disp3	G	A	4: 148,343,210 (GRCm39)	A567V	probably damaging	Het
Dnah5	T	C	15: 28,343,737 (GRCm39)	I2379T	probably damaging	Het
Dnah6	T	C	6: 73,072,027 (GRCm39)	Y2433C	probably damaging	Het
Dock3	A	G	9: 106,985,620 (GRCm39)	I85T	probably benign	Het
Dock9	A	C	14: 121,829,242 (GRCm39)	S1380A	probably benign	Het
Erbin	T	C	13: 104,022,711 (GRCm39)	T43A	probably benign	Het
Fastkd3	T	C	13: 68,733,360 (GRCm39)	V502A	possibly damaging	Het
Fn1	T	C	1: 71,690,784 (GRCm39)	H59R	probably damaging	Het
Fsd2	A	G	7: 81,209,407 (GRCm39)	V145A	possibly damaging	Het
Fzr1	A	G	10: 81,206,153 (GRCm39)	V178A	probably damaging	Het
Gnpnat1	T	C	14: 45,618,455 (GRCm39)	R116G	probably damaging	Het
Grm7	T	A	6: 110,891,472 (GRCm39)	V235E	probably damaging	Het
Hdac4	A	C	1: 91,862,367 (GRCm39)	N1002K	probably damaging	Het
Hey1	C	T	3: 8,729,957 (GRCm39)	A167T	probably benign	Het
Hrnr	A	G	3: 93,239,911 (GRCm39)	N3383S	unknown	Het
Ints2	A	T	11: 86,108,626 (GRCm39)	V907D	probably benign	Het
Jchain	T	A	5: 88,669,326 (GRCm39)	Q109L	probably damaging	Het
Klhdc7a	A	T	4: 139,693,335 (GRCm39)	Y537*	probably null	Het
Klra1	C	T	6: 130,354,742 (GRCm39)	S92N	probably benign	Het
Krt31	C	T	11: 99,940,406 (GRCm39)	G150S	probably benign	Het
Lrrc71	G	A	3: 87,649,950 (GRCm39)	T326M	probably benign	Het
Lrrn4	T	C	2: 132,712,363 (GRCm39)	T487A	probably benign	Het
Map4k5	T	G	12: 69,889,686 (GRCm39)	R198S	probably damaging	Het
Men1	G	A	19: 6,388,867 (GRCm39)	C354Y	probably damaging	Het
Ms4a18	A	T	19: 10,991,019 (GRCm39)	V25E	probably damaging	Het
Mutyh	T	A	4: 116,676,565 (GRCm39)	S512R	possibly damaging	Het
Myh10	G	T	11: 68,705,322 (GRCm39)	A1947S	possibly damaging	Het
Nfasc	T	C	1: 132,538,624 (GRCm39)	D427G	probably damaging	Het
Nlrp9c	A	G	7: 26,077,481 (GRCm39)	M767T	probably benign	Het
Nrbp1	T	C	5: 31,402,735 (GRCm39)	L185P	probably damaging	Het
Pcdh9	G	A	14: 94,125,741 (GRCm39)	P143L	probably damaging	Het
Pcsk6	A	T	7: 65,577,035 (GRCm39)	M158L	possibly damaging	Het
Pkd1	G	T	17: 24,795,566 (GRCm39)		probably null	Het
Plk4	A	T	3: 40,760,252 (GRCm39)	S383C	possibly damaging	Het
Plxna2	T	C	1: 194,326,297 (GRCm39)	L77P	probably damaging	Het
Pnpla6	A	T	8: 3,592,370 (GRCm39)	T1209S	probably benign	Het
Prdm2	A	G	4: 142,859,079 (GRCm39)	S1404P	possibly damaging	Het
Preb	T	C	5: 31,116,157 (GRCm39)	D150G	probably damaging	Het
Prrt2	A	G	7: 126,617,902 (GRCm39)	V59A	probably benign	Het
Prss40	T	C	1: 34,597,095 (GRCm39)	N151S	possibly damaging	Het
Ptprt	G	T	2: 161,400,818 (GRCm39)	A1053D	probably damaging	Het
Ptprt	A	G	2: 161,608,241 (GRCm39)	V685A	possibly damaging	Het
Rfx4	C	T	10: 84,731,952 (GRCm39)	S549F	possibly damaging	Het
Rnaset2b	T	A	17: 7,263,876 (GRCm39)	V87E	probably benign	Het
Rnf213	G	A	11: 119,331,933 (GRCm39)	E2381K	probably damaging	Het
Selp	T	A	1: 163,970,327 (GRCm39)	L597Q	probably damaging	Het
Sema6a	T	C	18: 47,433,209 (GRCm39)	D74G	probably damaging	Het
Serpinb9b	T	C	13: 33,213,542 (GRCm39)	V33A	probably benign	Het
Setd1b	A	T	5: 123,285,769 (GRCm39)	T272S	unknown	Het
Sgf29	G	C	7: 126,248,649 (GRCm39)		probably null	Het
Slc4a10	C	A	2: 62,098,548 (GRCm39)	Q561K	probably damaging	Het
Slc4a5	T	C	6: 83,250,214 (GRCm39)	I649T	possibly damaging	Het
Slc5a7	A	G	17: 54,600,863 (GRCm39)	Y91H	probably damaging	Het
Styxl1	T	C	5: 135,785,976 (GRCm39)	Y23C	probably damaging	Het
Tbc1d24	A	G	17: 24,425,846 (GRCm39)	V490A	possibly damaging	Het
Tbpl2	A	T	2: 23,984,744 (GRCm39)	F133L	probably benign	Het
Tnfrsf22	T	C	7: 143,192,126 (GRCm39)		probably benign	Het
Top2b	A	G	14: 16,398,916 (GRCm38)	E512G	probably damaging	Het
Trgc3	C	A	13: 19,445,164 (GRCm39)	F37L	probably damaging	Het
Ttc17	T	A	2: 94,194,690 (GRCm39)	H561L	probably benign	Het
Ttll4	G	T	1: 74,724,527 (GRCm39)	V566L	possibly damaging	Het
Ubqlnl	A	G	7: 103,797,692 (GRCm39)	Y602H	probably benign	Het
Vmn1r231	T	A	17: 21,110,212 (GRCm39)	E234D	probably damaging	Het
Wbp11	A	G	6: 136,797,583 (GRCm39)	S279P	probably damaging	Het
Wdr6	A	G	9: 108,453,733 (GRCm39)	L50P	probably damaging	Het
Zfp715	A	C	7: 42,948,073 (GRCm39)	I629S	possibly damaging	Het

Other mutations in Sectm1a

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01664:Sectm1a	APN	11	120,959,870 (GRCm39)	missense	possibly damaging	0.55
R0571:Sectm1a	UTSW	11	120,959,928 (GRCm39)	intron	probably benign
R2023:Sectm1a	UTSW	11	120,960,408 (GRCm39)	splice site	probably benign
R3157:Sectm1a	UTSW	11	120,959,603 (GRCm39)	missense	probably benign	0.19
R3158:Sectm1a	UTSW	11	120,959,603 (GRCm39)	missense	probably benign	0.19
R4463:Sectm1a	UTSW	11	120,960,477 (GRCm39)	missense	probably benign
R4664:Sectm1a	UTSW	11	120,960,552 (GRCm39)	missense	possibly damaging	0.76
R7241:Sectm1a	UTSW	11	120,960,708 (GRCm39)	missense	possibly damaging	0.46
R7418:Sectm1a	UTSW	11	120,960,119 (GRCm39)	splice site	probably null
R7712:Sectm1a	UTSW	11	120,959,631 (GRCm39)	missense	probably damaging	0.99
R8990:Sectm1a	UTSW	11	120,960,701 (GRCm39)	missense	probably damaging	1.00
R9100:Sectm1a	UTSW	11	120,960,569 (GRCm39)	missense	possibly damaging	0.90
R9200:Sectm1a	UTSW	11	120,960,473 (GRCm39)	missense	probably damaging	1.00
R9718:Sectm1a	UTSW	11	120,960,490 (GRCm39)	missense	probably damaging	0.99

Predicted Primers

PCR Primer
(F):5'- TGAGTCACCATACGTCTCTGC -3'
(R):5'- TCTCCATACAGGCTGGGACAAC -3'

Sequencing Primer
(F):5'- TCTGCCACACTCCATACACTG -3'
(R):5'- TATCTGCACGGAGGGCATC -3'

Posted On

2014-08-25