Mutagenetix > Incidental Mutation

Incidental Mutation 'R8968:Setd1a'

682857

Institutional Source

Beutler Lab

Gene Symbol

Setd1a

Ensembl Gene

ENSMUSG00000042308

Gene Name

SET domain containing 1A

Synonyms

KMT2F

MMRRC Submission

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R8968 (G1)

Quality Score

225.009

Status

Not validated

Chromosome

Chromosomal Location

127776670-127800122 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

C to T at 127786107 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Proline to Leucine at position 662 (P662L)

Ref Sequence

ENSEMBL: ENSMUSP00000047672 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000047075] [ENSMUST00000047157] [ENSMUST00000126761] [ENSMUST00000144406] [ENSMUST00000154987]

AlphaFold

E9PYH6

Predicted Effect

possibly damaging
Transcript: ENSMUST00000047075
AA Change: P662L

PolyPhen 2 Score 0.930 (Sensitivity: 0.81; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000047672
Gene: ENSMUSG00000042308
AA Change: P662L

Domain	Start	End	E-Value	Type
RRM	95	168	7.6e-6	SMART
low complexity region	209	242	N/A	INTRINSIC
low complexity region	278	295	N/A	INTRINSIC
low complexity region	315	357	N/A	INTRINSIC
low complexity region	427	487	N/A	INTRINSIC
Blast:SET	488	976	N/A	BLAST
low complexity region	977	1007	N/A	INTRINSIC
low complexity region	1015	1079	N/A	INTRINSIC
low complexity region	1087	1098	N/A	INTRINSIC
low complexity region	1122	1152	N/A	INTRINSIC
low complexity region	1157	1173	N/A	INTRINSIC
Blast:SET	1193	1310	2e-24	BLAST
low complexity region	1311	1368	N/A	INTRINSIC
low complexity region	1369	1396	N/A	INTRINSIC
N-SET	1428	1567	6.75e-64	SMART
SET	1577	1700	3.22e-35	SMART
PostSET	1700	1716	1.16e-4	SMART

Predicted Effect

possibly damaging
Transcript: ENSMUST00000047157
AA Change: P662L

PolyPhen 2 Score 0.930 (Sensitivity: 0.81; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000037600
Gene: ENSMUSG00000042308
AA Change: P662L

Domain	Start	End	E-Value	Type
RRM	95	168	7.6e-6	SMART
low complexity region	209	242	N/A	INTRINSIC
low complexity region	278	295	N/A	INTRINSIC
low complexity region	315	357	N/A	INTRINSIC
low complexity region	427	487	N/A	INTRINSIC
Blast:SET	488	976	N/A	BLAST
low complexity region	977	1007	N/A	INTRINSIC
low complexity region	1015	1079	N/A	INTRINSIC
low complexity region	1087	1098	N/A	INTRINSIC
low complexity region	1122	1152	N/A	INTRINSIC
low complexity region	1157	1173	N/A	INTRINSIC
Blast:SET	1193	1310	2e-24	BLAST
low complexity region	1311	1368	N/A	INTRINSIC
low complexity region	1369	1396	N/A	INTRINSIC
N-SET	1428	1567	6.75e-64	SMART
SET	1577	1700	3.22e-35	SMART
PostSET	1700	1716	1.16e-4	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000126761

SMART Domains

Protein: ENSMUSP00000120666
Gene: ENSMUSG00000042308

Domain	Start	End	E-Value	Type
RRM	95	168	7.6e-6	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000144406

SMART Domains

Protein: ENSMUSP00000115248
Gene: ENSMUSG00000042308

Domain	Start	End	E-Value	Type
RRM	95	168	7.6e-6	SMART
low complexity region	209	242	N/A	INTRINSIC

Predicted Effect

possibly damaging
Transcript: ENSMUST00000154987
AA Change: P119L

PolyPhen 2 Score 0.930 (Sensitivity: 0.81; Specificity: 0.94)

Coding Region Coverage

1x: 100.0%
3x: 99.9%
10x: 99.4%
20x: 97.9%

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The protein encoded by this gene is a component of a histone methyltransferase (HMT) complex that produces mono-, di-, and trimethylated histone H3 at Lys4. Trimethylation of histone H3 at lysine 4 (H3K4me3) is a chromatin modification known to generally mark the transcription start sites of active genes. The protein contains SET domains, a RNA recognition motif domain and is a member of the class V-like SAM-binding methyltransferase superfamily. [provided by RefSeq, Dec 2016]
PHENOTYPE: Animals homozygous for this allele were dead by E7.5 [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 80 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
2210408I21Rik	T	A	13: 77,332,310	L1153*	probably null	Het
2410089E03Rik	A	T	15: 8,201,281	H1014L	possibly damaging	Het
2810474O19Rik	T	A	6: 149,327,166	V570D	probably damaging	Het
Adamts2	T	C	11: 50,792,723	I944T	possibly damaging	Het
Aqp9	A	T	9: 71,138,203	C67*	probably null	Het
Armt1	G	T	10: 4,454,150	G412W	probably damaging	Het
B4galt1	T	C	4: 40,807,243	D381G	probably benign	Het
Bmp5	A	T	9: 75,873,297	H292L	probably benign	Het
Brpf1	T	C	6: 113,322,549	F1181S	probably damaging	Het
Btbd7	C	A	12: 102,812,766	G414C	probably damaging	Het
Ccdc65	A	T	15: 98,718,842	K204*	probably null	Het
Cdk5	T	A	5: 24,422,381	K88M	probably damaging	Het
Cdrt4	T	A	11: 62,992,808	L112Q	probably damaging	Het
Cenpb	T	C	2: 131,178,627	E417G	unknown	Het
Cep135	T	C	5: 76,606,729	I351T	possibly damaging	Het
Ces1d	A	T	8: 93,187,755	S226R	probably damaging	Het
Cfap97	T	A	8: 46,170,077	V168E	possibly damaging	Het
CN725425	T	C	15: 91,245,887	C318R	possibly damaging	Het
Cnga3	T	A	1: 37,261,379	D393E	probably benign	Het
Cpsf1	G	A	15: 76,601,969	R358*	probably null	Het
Cyp2b23	G	A	7: 26,679,538	P167L	probably damaging	Het
Cyp2c70	A	T	19: 40,153,615	H477Q	probably benign	Het
D930020B18Rik	A	C	10: 121,654,816	Y107S	probably damaging	Het
Dhrs1	A	T	14: 55,740,735	F216I	probably benign	Het
Dmgdh	A	T	13: 93,709,259	K474*	probably null	Het
Dsp	T	C	13: 38,151,620	I11T	possibly damaging	Het
Erh	G	T	12: 80,637,508	A65E	probably benign	Het
Fmnl1	AGGCTCTGG	AGG	11: 103,186,618		probably benign	Het
Grid2	A	C	6: 64,666,155	H967P	probably benign	Het
Hc	A	G	2: 35,032,305	I503T	possibly damaging	Het
Herc3	T	C	6: 58,890,198	L824S	probably damaging	Het
Hfm1	T	C	5: 106,917,573	D80G	probably benign	Het
Hjurp	CTCTGGGAGGGCTTGCTCCGGGGGCAGTGTGTCCTGTTCTTGTGCAGCCCCT	C	1: 88,266,277		probably benign	Het
Hspa1l	A	G	17: 34,977,254	K90E	possibly damaging	Het
Impa2	G	A	18: 67,318,427	V264I	probably benign	Het
Ipmk	C	T	10: 71,363,503	R65W	probably damaging	Het
Klhl38	C	T	15: 58,322,104	V410I	probably benign	Het
Lcn4	A	G	2: 26,668,348	I175T	possibly damaging	Het
Lipo2	C	A	19: 33,749,517	W40L	probably damaging	Het
Mgam	A	T	6: 40,757,811		probably null	Het
Myo16	T	A	8: 10,569,700	I1417N	unknown	Het
Olfr1052	G	A	2: 86,298,182	R122H	probably benign	Het
Olfr1196	T	A	2: 88,700,793	I179F	probably benign	Het
Olfr136	A	T	17: 38,335,429	T91S	possibly damaging	Het
Olfr603	A	T	7: 103,383,460	C181S	probably damaging	Het
Pcdha11	A	G	18: 37,012,254	N466S	probably damaging	Het
Pif1	C	T	9: 65,591,794	T432M	probably damaging	Het
Pigt	CCAGGCCAGTGAGTAGGTTTGTCTCTGTCTAGTGTGGATCTGTAACCACAGGCCAGTGAGTAGGTTTGTCTCTGTCTAGTGTGGATCTGTAACCACAGGCCAGTGAGTAGGTTTGTCTCTGTCTAGTGTGGAT	CCAGGCCAGTGAGTAGGTTTGTCTCTGTCTAGTGTGGATCTGTAACCACAGGCCAGTGAGTAGGTTTGTCTCTGTCTAGTGTGGAT	2: 164,499,669		probably null	Het
Pkd1l3	CCACAGGTGACATCAGAGACACCTGCATCCAGCAGCCCAACACAGGTGACATCAGAGACACCTGCATCCAGCAGCCCAACACAGGTGACATCAGACACACCTGCATCCAATAGCCCACCACAGGGGACATCAGACACACCTGGATTCAGCAGCCCAACACAGGTGACAACAGCCACACTTGTATCCAGCAGCCCACCACAGGTGACATCAGACACACCTGCATCCAGCAGCCCACCACAGGTGACATCAGACACACCTGCATCCAGCAGCCCACCACAGGTGACATCAGAGACACCTGCATCCAGCAGCCCACCACAGGTGACATCAGACACATCTGCATCCATCAGCCCACCACAGGTAATATCAGACACACCTGCATCCAGCAGCCCACCACAGGTGACATCAGAGACACCTGCATCCAGCAGCCCAACA	CCACAGGTGACATCAGAGACACCTGCATCCAGCAGCCCAACACAGGTGACATCAGACACACCTGCATCCAATAGCCCACCACAGGGGACATCAGACACACCTGGATTCAGCAGCCCAACACAGGTGACAACAGCCACACTTGTATCCAGCAGCCCACCACAGGTGACATCAGACACACCTGCATCCAGCAGCCCACCACAGGTGACATCAGACACACCTGCATCCAGCAGCCCACCACAGGTGACATCAGAGACACCTGCATCCAGCAGCCCACCACAGGTGACATCAGACACATCTGCATCCATCAGCCCACCACAGGTAATATCAGACACACCTGCATCCAGCAGCCCACCACAGGTGACATCAGAGACACCTGCATCCAGCAGCCCAACA	8: 109,623,788		probably benign	Het
Pole	T	C	5: 110,312,083	S1118P	possibly damaging	Het
Ppp4r4	T	C	12: 103,600,447	M652T	probably benign	Het
Prex2	A	T	1: 11,110,338	K376*	probably null	Het
Prps1l1	A	T	12: 34,985,206	I107F	probably damaging	Het
Rfc1	C	T	5: 65,275,435	V761I	probably benign	Het
Ripk4	T	C	16: 97,746,003	E353G	probably benign	Het
Robo2	C	A	16: 73,971,053		probably null	Het
Rrm1	C	T	7: 102,468,338	A745V	probably benign	Het
Sash1	A	T	10: 8,730,415	V737D	probably benign	Het
Sel1l2	T	C	2: 140,285,289	K101E	probably benign	Het
Selenbp2	A	T	3: 94,700,030	I253F	probably benign	Het
Slc16a6	C	T	11: 109,454,950	V496I	possibly damaging	Het
Slc4a4	A	T	5: 89,084,653	M239L	probably benign	Het
Slc7a8	G	C	14: 54,781,293	A12G	probably benign	Het
Snx30	T	C	4: 59,886,517	S309P	possibly damaging	Het
Spen	T	C	4: 141,470,390	N3389S	probably benign	Het
Spg11	T	C	2: 122,092,206	T921A	probably damaging	Het
Tanc2	T	A	11: 105,867,574	D720E	possibly damaging	Het
Tmprss9	A	T	10: 80,894,329	I688F	possibly damaging	Het
Trap1	A	G	16: 4,044,626	V596A	possibly damaging	Het
Ttc32	G	T	12: 9,030,187	R44L	probably benign	Het
Tusc3	T	A	8: 39,130,744	N288K	probably benign	Het
Ush2a	G	A	1: 188,395,759	G656E	probably damaging	Het
Vill	T	C	9: 119,063,603		probably null	Het
Vmn1r5	A	T	6: 56,986,197	R286*	probably null	Het
Vmn2r14	T	C	5: 109,217,667	T514A	probably benign	Het
Vmn2r32	G	A	7: 7,474,205	H396Y	probably benign	Het
Vmn2r75	A	T	7: 86,171,557	Y56*	probably null	Het
Wdfy3	C	T	5: 101,864,117	S2668N	probably benign	Het
Wdr72	G	A	9: 74,152,447	D392N	probably benign	Het
Zfp518a	A	C	19: 40,913,426	K600Q	possibly damaging	Het

Other mutations in Setd1a

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02508:Setd1a	APN	7	127797698	unclassified	probably benign
IGL02657:Setd1a	APN	7	127795825	unclassified	probably benign
IGL02792:Setd1a	APN	7	127791350	missense	unknown
IGL02876:Setd1a	APN	7	127778501	splice site	probably benign
IGL02967:Setd1a	APN	7	127785177	unclassified	probably benign
IGL03090:Setd1a	APN	7	127786500	missense	possibly damaging	0.83
IGL03238:Setd1a	APN	7	127785546	missense	possibly damaging	0.86
FR4449:Setd1a	UTSW	7	127785326	unclassified	probably benign
FR4548:Setd1a	UTSW	7	127785307	unclassified	probably benign
FR4548:Setd1a	UTSW	7	127785313	unclassified	probably benign
FR4589:Setd1a	UTSW	7	127785297	unclassified	probably benign
FR4737:Setd1a	UTSW	7	127785312	unclassified	probably benign
FR4976:Setd1a	UTSW	7	127785307	unclassified	probably benign
FR4976:Setd1a	UTSW	7	127785316	unclassified	probably benign
R0367:Setd1a	UTSW	7	127788186	splice site	probably benign
R0411:Setd1a	UTSW	7	127796051	unclassified	probably benign
R0416:Setd1a	UTSW	7	127785297	unclassified	probably benign
R0470:Setd1a	UTSW	7	127785057	unclassified	probably benign
R0645:Setd1a	UTSW	7	127787210	missense	probably damaging	0.96
R0667:Setd1a	UTSW	7	127786593	missense	probably damaging	0.99
R1251:Setd1a	UTSW	7	127797424	unclassified	probably benign
R1465:Setd1a	UTSW	7	127788340	unclassified	probably benign
R1465:Setd1a	UTSW	7	127788340	unclassified	probably benign
R1660:Setd1a	UTSW	7	127796669	unclassified	probably benign
R1730:Setd1a	UTSW	7	127785124	nonsense	probably null
R1760:Setd1a	UTSW	7	127785890	missense	possibly damaging	0.68
R1783:Setd1a	UTSW	7	127785124	nonsense	probably null
R2149:Setd1a	UTSW	7	127786518	missense	possibly damaging	0.75
R2159:Setd1a	UTSW	7	127785489	missense	possibly damaging	0.91
R2303:Setd1a	UTSW	7	127799155	unclassified	probably benign
R2679:Setd1a	UTSW	7	127795724	unclassified	probably benign
R3428:Setd1a	UTSW	7	127785321	unclassified	probably benign
R4108:Setd1a	UTSW	7	127799202	unclassified	probably benign
R4227:Setd1a	UTSW	7	127796647	unclassified	probably benign
R4438:Setd1a	UTSW	7	127785731	missense	possibly damaging	0.83
R4730:Setd1a	UTSW	7	127797330	unclassified	probably benign
R4869:Setd1a	UTSW	7	127797604	unclassified	probably benign
R4892:Setd1a	UTSW	7	127778524	missense	probably damaging	0.99
R5152:Setd1a	UTSW	7	127784025	missense	probably benign
R5502:Setd1a	UTSW	7	127797248	critical splice donor site	probably null
R5527:Setd1a	UTSW	7	127785629	missense	probably damaging	0.99
R6189:Setd1a	UTSW	7	127778283	splice site	probably null
R6250:Setd1a	UTSW	7	127791299	missense	unknown
R7131:Setd1a	UTSW	7	127796418	small deletion	probably benign
R7988:Setd1a	UTSW	7	127786194	missense	probably benign	0.02
R8029:Setd1a	UTSW	7	127786214	missense	probably benign	0.08
R8079:Setd1a	UTSW	7	127785053	missense	unknown
R8171:Setd1a	UTSW	7	127791227	missense	unknown
R8175:Setd1a	UTSW	7	127796243	missense	unknown
R8286:Setd1a	UTSW	7	127786184	missense	possibly damaging	0.96
R8327:Setd1a	UTSW	7	127791497	missense	unknown
R8460:Setd1a	UTSW	7	127784120	missense	unknown
R8547:Setd1a	UTSW	7	127796504	unclassified	probably benign
R8699:Setd1a	UTSW	7	127786602	missense	possibly damaging	0.53
R8822:Setd1a	UTSW	7	127786160	missense	possibly damaging	0.86
R9063:Setd1a	UTSW	7	127786386	missense	possibly damaging	0.91
R9178:Setd1a	UTSW	7	127786418	missense	possibly damaging	0.93
R9672:Setd1a	UTSW	7	127786065	missense	possibly damaging	0.96
R9700:Setd1a	UTSW	7	127786580	missense	possibly damaging	0.53
RF001:Setd1a	UTSW	7	127785314	unclassified	probably benign
RF008:Setd1a	UTSW	7	127785314	unclassified	probably benign
RF011:Setd1a	UTSW	7	127785343	unclassified	probably benign
RF014:Setd1a	UTSW	7	127785346	unclassified	probably benign
RF030:Setd1a	UTSW	7	127785301	unclassified	probably benign
RF030:Setd1a	UTSW	7	127785311	unclassified	probably benign
RF031:Setd1a	UTSW	7	127785311	unclassified	probably benign
RF036:Setd1a	UTSW	7	127785300	unclassified	probably benign
RF041:Setd1a	UTSW	7	127785332	unclassified	probably benign
RF052:Setd1a	UTSW	7	127785357	unclassified	probably benign
RF055:Setd1a	UTSW	7	127785299	unclassified	probably benign
RF056:Setd1a	UTSW	7	127785303	unclassified	probably benign
RF056:Setd1a	UTSW	7	127785328	unclassified	probably benign
RF058:Setd1a	UTSW	7	127785318	unclassified	probably benign
Z1176:Setd1a	UTSW	7	127799094	missense	unknown

Predicted Primers

PCR Primer
(F):5'- ATCTCTGATGATGACAGGGGTG -3'
(R):5'- ATAGGCTGCCTCTTGTGGAG -3'

Sequencing Primer
(F):5'- TGATGACAGGGGTGGCTCAC -3'
(R):5'- CTCTTGTGGAGGTGGAAAAGG -3'

Posted On

2021-10-11