Mutagenetix > Incidental Mutation

Incidental Mutation 'R4808:Lmo2'

370805

Institutional Source

Beutler Lab

Gene Symbol

Lmo2

Ensembl Gene

ENSMUSG00000032698

Gene Name

LIM domain only 2

Synonyms

Rbtn2, Rhom-2, Rbtn-2

MMRRC Submission

042427-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R4808 (G1)

Quality Score

225

Status

Validated

Chromosome

Chromosomal Location

103788340-103812223 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 103811407 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Tyrosine to Histidine at position 147 (Y147H)

Ref Sequence

ENSEMBL: ENSMUSP00000106769 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000111139] [ENSMUST00000111140] [ENSMUST00000111143] [ENSMUST00000123437] [ENSMUST00000138815] [ENSMUST00000170926] [ENSMUST00000156813]

AlphaFold

P25801

Predicted Effect

probably damaging
Transcript: ENSMUST00000111139
AA Change: Y147H

PolyPhen 2 Score 0.991 (Sensitivity: 0.71; Specificity: 0.97)

SMART Domains

Protein: ENSMUSP00000106769
Gene: ENSMUSG00000032698
AA Change: Y147H

Domain	Start	End	E-Value	Type
low complexity region	22	44	N/A	INTRINSIC
low complexity region	60	73	N/A	INTRINSIC
LIM	91	145	1.71e-13	SMART

Predicted Effect

possibly damaging
Transcript: ENSMUST00000111140
AA Change: Y219H

PolyPhen 2 Score 0.935 (Sensitivity: 0.80; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000106770
Gene: ENSMUSG00000032698
AA Change: Y219H

Domain	Start	End	E-Value	Type
low complexity region	22	44	N/A	INTRINSIC
low complexity region	60	73	N/A	INTRINSIC
LIM	99	153	4.03e-10	SMART
LIM	163	217	1.71e-13	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000111143
AA Change: Y211H

PolyPhen 2 Score 0.318 (Sensitivity: 0.90; Specificity: 0.89)

SMART Domains

Protein: ENSMUSP00000106773
Gene: ENSMUSG00000032698
AA Change: Y211H

Domain	Start	End	E-Value	Type
low complexity region	14	36	N/A	INTRINSIC
low complexity region	52	65	N/A	INTRINSIC
LIM	91	145	4.03e-10	SMART
LIM	155	209	1.71e-13	SMART

Predicted Effect

possibly damaging
Transcript: ENSMUST00000123437
AA Change: Y149H

PolyPhen 2 Score 0.639 (Sensitivity: 0.87; Specificity: 0.91)

SMART Domains

Protein: ENSMUSP00000117703
Gene: ENSMUSG00000032698
AA Change: Y149H

Domain	Start	End	E-Value	Type
LIM	29	83	4.03e-10	SMART
LIM	93	147	1.71e-13	SMART

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000123966

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000133210

Predicted Effect

probably benign
Transcript: ENSMUST00000138815

SMART Domains

Protein: ENSMUSP00000121927
Gene: ENSMUSG00000032698

Domain	Start	End	E-Value	Type
Pfam:LIM	30	59	2.3e-8	PFAM

Predicted Effect

possibly damaging
Transcript: ENSMUST00000170926
AA Change: Y149H

PolyPhen 2 Score 0.639 (Sensitivity: 0.87; Specificity: 0.91)

SMART Domains

Protein: ENSMUSP00000128317
Gene: ENSMUSG00000032698
AA Change: Y149H

Domain	Start	End	E-Value	Type
LIM	29	83	4.03e-10	SMART
LIM	93	147	1.71e-13	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000156813

SMART Domains

Protein: ENSMUSP00000122369
Gene: ENSMUSG00000032698

Domain	Start	End	E-Value	Type
LIM	29	83	4.03e-10	SMART
LIM	93	144	1.36e-7	SMART

Meta Mutation Damage Score

0.1446

Coding Region Coverage

1x: 99.2%
3x: 98.5%
10x: 96.8%
20x: 93.9%

Validation Efficiency

99% (71/72)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] LMO2 encodes a cysteine-rich, two LIM-domain protein that is required for yolk sac erythropoiesis. The LMO2 protein has a central and crucial role in hematopoietic development and is highly conserved. The LMO2 transcription start site is located approximately 25 kb downstream from the 11p13 T-cell translocation cluster (11p13 ttc), where a number T-cell acute lymphoblastic leukemia-specific translocations occur. Alternative splicing results in multiple transcript variants encoding different isoforms.[provided by RefSeq, Nov 2008]
PHENOTYPE: Homozygotes for a targeted null mutation exhibit lack of yolk sac erythropoiesis and die around embryonic day 10.5. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 61 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
4930562C15Rik	T	C	16: 4,667,536 (GRCm39)	F309S	unknown	Het
Abi3bp	A	G	16: 56,414,879 (GRCm39)	D347G	probably damaging	Het
Adora2a	A	G	10: 75,169,280 (GRCm39)	N248S	probably damaging	Het
Agap3	T	C	5: 24,706,243 (GRCm39)	F836L	probably benign	Het
Arap2	G	A	5: 62,887,984 (GRCm39)	T454M	probably benign	Het
Arsi	G	A	18: 61,049,723 (GRCm39)	G202E	probably benign	Het
Atm	A	G	9: 53,356,795 (GRCm39)	S2819P	probably damaging	Het
Atp8b1	A	G	18: 64,694,782 (GRCm39)	F500S	probably benign	Het
Catsper1	G	A	19: 5,394,164 (GRCm39)	D682N	possibly damaging	Het
Chordc1	A	G	9: 18,203,709 (GRCm39)	Y6C	probably damaging	Het
Cped1	A	G	6: 22,088,756 (GRCm39)	K273R	probably damaging	Het
Crat	T	C	2: 30,300,033 (GRCm39)	I116V	probably benign	Het
Cyp26a1	A	G	19: 37,689,573 (GRCm39)	H423R	probably benign	Het
Cyp4f40	A	G	17: 32,893,249 (GRCm39)	E360G	probably benign	Het
D430041D05Rik	A	C	2: 104,031,455 (GRCm39)		probably null	Het
Eif3i	A	T	4: 129,485,857 (GRCm39)	F323I	probably benign	Het
Fam53a	A	G	5: 33,765,023 (GRCm39)	S228P	probably damaging	Het
Gm10305	C	T	4: 99,161,481 (GRCm39)		noncoding transcript	Het
Gm7347	C	T	5: 26,259,995 (GRCm39)	R185H	probably benign	Het
Golga2	G	T	2: 32,193,226 (GRCm39)	A441S	probably benign	Het
Gphn	T	A	12: 78,701,654 (GRCm39)	S608T	probably benign	Het
Gramd1b	A	T	9: 40,215,645 (GRCm39)	V620E	possibly damaging	Het
H2bc18	T	G	3: 96,177,329 (GRCm39)	S88A	probably benign	Het
H2-M9	T	C	17: 36,951,684 (GRCm39)	T264A	probably damaging	Het
Hjurp	G	C	1: 88,204,937 (GRCm39)		probably benign	Het
Hsd3b6	G	A	3: 98,713,601 (GRCm39)	H233Y	probably damaging	Het
Ighv6-7	T	A	12: 114,419,341 (GRCm39)	R88*	probably null	Het
Jup	C	T	11: 100,269,018 (GRCm39)	R465H	probably damaging	Het
Kif16b	A	T	2: 142,699,278 (GRCm39)	Y101N	probably damaging	Het
Mapkap1	G	A	2: 34,487,434 (GRCm39)		probably null	Het
Myocos	T	C	1: 162,484,609 (GRCm39)		probably benign	Het
Nav1	C	T	1: 135,382,942 (GRCm39)	G1197S	probably damaging	Het
Oas1g	T	G	5: 121,017,385 (GRCm39)	K223T	possibly damaging	Het
Oprd1	G	A	4: 131,844,705 (GRCm39)	T101M	probably damaging	Het
Or14c40	A	G	7: 86,313,146 (GRCm39)	D92G	probably benign	Het
Or51g2	T	C	7: 102,623,118 (GRCm39)	H27R	probably damaging	Het
Pcdha7	G	A	18: 37,107,281 (GRCm39)	C102Y	probably damaging	Het
Pcx	T	A	19: 4,670,956 (GRCm39)	S1086T	probably benign	Het
Pde8a	A	G	7: 80,932,679 (GRCm39)	T114A	probably benign	Het
Pias4	A	G	10: 80,991,674 (GRCm39)		probably null	Het
Pkn3	G	A	2: 29,980,093 (GRCm39)	G750E	probably damaging	Het
Pramel5	G	A	4: 143,999,325 (GRCm39)	A254V	probably benign	Het
Ptprq	A	G	10: 107,554,368 (GRCm39)	L119P	probably damaging	Het
Rasgrf2	A	T	13: 92,160,190 (GRCm39)	L395Q	probably damaging	Het
Rbm19	T	C	5: 120,256,839 (GRCm39)	S51P	probably damaging	Het
Rfx5	A	G	3: 94,865,591 (GRCm39)	T297A	probably benign	Het
Scaf1	T	C	7: 44,658,063 (GRCm39)	E272G	probably damaging	Het
Slc24a2	G	T	4: 86,950,475 (GRCm39)	Q396K	probably benign	Het
Slc39a14	T	C	14: 70,553,250 (GRCm39)	I162V	probably damaging	Het
Snap25	A	G	2: 136,612,022 (GRCm39)	D70G	probably damaging	Het
Spata31d1b	C	T	13: 59,863,535 (GRCm39)	P228S	probably benign	Het
Sppl3	T	A	5: 115,221,485 (GRCm39)		probably benign	Het
Sspo	A	G	6: 48,428,095 (GRCm39)	D314G	probably damaging	Het
Steap1	G	T	5: 5,788,829 (GRCm39)		probably benign	Het
Suox	T	A	10: 128,507,758 (GRCm39)	D90V	possibly damaging	Het
Sycp2	T	C	2: 178,035,754 (GRCm39)		probably benign	Het
Tektl1	A	T	10: 78,588,698 (GRCm39)	D37E	probably benign	Het
Tln2	G	T	9: 67,239,015 (GRCm39)	T1087K	probably benign	Het
Uap1l1	A	G	2: 25,252,097 (GRCm39)	S473P	probably damaging	Het
Xpo5	T	A	17: 46,546,896 (GRCm39)	N882K	probably benign	Het
Zfp536	A	T	7: 37,178,730 (GRCm39)	C228S	probably damaging	Het

Other mutations in Lmo2

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL02631:Lmo2	APN	2	103,811,432 (GRCm39)	missense	probably benign	0.21
R1983:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R2013:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R2014:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R2131:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R2132:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R2133:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R2233:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R2235:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R2510:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R3038:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R3813:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R4058:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R4059:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R4448:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R4450:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R4544:Lmo2	UTSW	2	103,806,382 (GRCm39)	missense	probably damaging	1.00
R4805:Lmo2	UTSW	2	103,811,407 (GRCm39)	missense	probably damaging	0.99
R4975:Lmo2	UTSW	2	103,806,488 (GRCm39)	nonsense	probably null
R5310:Lmo2	UTSW	2	103,806,445 (GRCm39)	missense	probably damaging	0.98
R5823:Lmo2	UTSW	2	103,811,417 (GRCm39)	missense	probably damaging	1.00
R6267:Lmo2	UTSW	2	103,800,946 (GRCm39)	missense	possibly damaging	0.86
R6296:Lmo2	UTSW	2	103,800,946 (GRCm39)	missense	possibly damaging	0.86
R6949:Lmo2	UTSW	2	103,801,018 (GRCm39)	start codon destroyed	probably null	0.53
R8051:Lmo2	UTSW	2	103,801,045 (GRCm39)	missense	possibly damaging	0.95
R8719:Lmo2	UTSW	2	103,811,264 (GRCm39)	missense	probably damaging	0.98
R8746:Lmo2	UTSW	2	103,806,384 (GRCm39)	missense	possibly damaging	0.85

Predicted Primers

PCR Primer
(F):5'- CTGTGCATCCTGTGACAAGC -3'
(R):5'- ATTCTCTCTAAGGGCTGGTCC -3'

Sequencing Primer
(F):5'- ATCCTGTGACAAGCGGATC -3'
(R):5'- GAAGTCTCAGCCTTTGCATTATG -3'

Posted On

2016-02-04