Incidental Mutation 'R0064:Crlf3'
ID 34419
Institutional Source Beutler Lab
Gene Symbol Crlf3
Ensembl Gene ENSMUSG00000017561
Gene Name cytokine receptor-like factor 3
Synonyms Creme9, cytor4
MMRRC Submission 038356-MU
Accession Numbers
Essential gene? Non essential (E-score: 0.000) question?
Stock # R0064 (G1)
Quality Score 225
Status Validated
Chromosome 11
Chromosomal Location 79937319-79971817 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to G at 79948728 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Isoleucine to Threonine at position 239 (I239T)
Ref Sequence ENSEMBL: ENSMUSP00000099523 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000061283] [ENSMUST00000103233] [ENSMUST00000177825] [ENSMUST00000178893] [ENSMUST00000179855]
AlphaFold Q9Z2L7
Predicted Effect possibly damaging
Transcript: ENSMUST00000061283
AA Change: I239T

PolyPhen 2 Score 0.810 (Sensitivity: 0.84; Specificity: 0.93)
SMART Domains Protein: ENSMUSP00000060028
Gene: ENSMUSG00000017561
AA Change: I239T

DomainStartEndE-ValueType
coiled coil region 10 43 N/A INTRINSIC
low complexity region 112 124 N/A INTRINSIC
FN3 179 260 1.66e0 SMART
Predicted Effect noncoding transcript
Transcript: ENSMUST00000092858
Predicted Effect possibly damaging
Transcript: ENSMUST00000103233
AA Change: I239T

PolyPhen 2 Score 0.810 (Sensitivity: 0.84; Specificity: 0.93)
SMART Domains Protein: ENSMUSP00000099523
Gene: ENSMUSG00000017561
AA Change: I239T

DomainStartEndE-ValueType
coiled coil region 10 43 N/A INTRINSIC
low complexity region 112 124 N/A INTRINSIC
FN3 179 260 1.66e0 SMART
Predicted Effect noncoding transcript
Transcript: ENSMUST00000147164
Predicted Effect probably benign
Transcript: ENSMUST00000177825
SMART Domains Protein: ENSMUSP00000136473
Gene: ENSMUSG00000017561

DomainStartEndE-ValueType
coiled coil region 10 43 N/A INTRINSIC
low complexity region 112 124 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000178280
Predicted Effect probably benign
Transcript: ENSMUST00000178893
SMART Domains Protein: ENSMUSP00000137371
Gene: ENSMUSG00000017561

DomainStartEndE-ValueType
coiled coil region 10 39 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000179855
Meta Mutation Damage Score 0.2246 question?
Coding Region Coverage
  • 1x: 99.3%
  • 3x: 98.6%
  • 10x: 97.1%
  • 20x: 95.0%
Validation Efficiency 100% (55/55)
MGI Phenotype FUNCTION: This gene encodes a cytokine receptor-like factor that contains a fibronectin type 3 domain. The encoded protein may act as a negative regulator of the cell cycle. There is a pseudogene for this gene on chromosome 1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2013]
PHENOTYPE: Mice homozygous for a knock-out allele exhibit decreased lean body mass, decreased platelet cell number and increased circulating fructosamine level. [provided by MGI curators]
Allele List at MGI

All alleles(39) : Targeted, other(2) Gene trapped(37)
Other mutations in this stock
Total: 54 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Abca9 G T 11: 110,035,698 (GRCm39) L641M probably damaging Het
Abca9 A C 11: 110,035,697 (GRCm39) L641R probably damaging Het
Abhd18 A G 3: 40,888,288 (GRCm39) I377M probably benign Het
Arhgef17 C A 7: 100,530,561 (GRCm39) M1408I probably benign Het
Bcl2a1a G C 9: 88,839,516 (GRCm39) G138A probably damaging Het
C4b A G 17: 34,957,830 (GRCm39) L617P probably damaging Het
Ccdc25 T A 14: 66,091,561 (GRCm39) I60K possibly damaging Het
Cdk1 T C 10: 69,180,907 (GRCm39) D101G probably benign Het
Cdon A G 9: 35,400,523 (GRCm39) H1079R probably benign Het
Cep126 A T 9: 8,130,183 (GRCm39) probably benign Het
Cic T A 7: 24,986,565 (GRCm39) S1299T probably damaging Het
Cic C A 7: 24,986,566 (GRCm39) S1299Y probably damaging Het
Clstn1 G A 4: 149,719,253 (GRCm39) V361M probably damaging Het
Cstf2t T A 19: 31,060,699 (GRCm39) N78K probably damaging Het
Cul1 A G 6: 47,479,349 (GRCm39) probably benign Het
D430041D05Rik T G 2: 104,079,502 (GRCm39) T1194P probably damaging Het
Fbp2 A T 13: 63,001,862 (GRCm39) F118I probably damaging Het
Fbxw14 A T 9: 109,116,660 (GRCm39) Y16* probably null Het
Fgd3 T G 13: 49,449,901 (GRCm39) D116A possibly damaging Het
Gm7168 C T 17: 14,170,121 (GRCm39) T496I probably benign Het
Hsh2d G A 8: 72,954,304 (GRCm39) D229N probably benign Het
Klhl5 T A 5: 65,298,631 (GRCm39) S137T probably benign Het
Knl1 T A 2: 118,906,724 (GRCm39) N1604K probably benign Het
Lpcat1 T A 13: 73,662,585 (GRCm39) N463K probably damaging Het
Lpl A G 8: 69,345,356 (GRCm39) H120R probably damaging Het
Man1a2 A T 3: 100,499,199 (GRCm39) S412T possibly damaging Het
Mcc C G 18: 44,652,583 (GRCm39) probably benign Het
Myo18a G T 11: 77,738,170 (GRCm39) R1704L probably damaging Het
Nlrc3 G T 16: 3,781,951 (GRCm39) T486K possibly damaging Het
Nrip1 T A 16: 76,091,558 (GRCm39) probably benign Het
Nutf2 A G 8: 106,605,441 (GRCm39) D92G probably damaging Het
Obscn A C 11: 58,918,292 (GRCm39) V6260G probably damaging Het
Or10a2 T C 7: 106,673,487 (GRCm39) F151L probably benign Het
Or2ak7 G A 11: 58,575,301 (GRCm39) V201M probably benign Het
Plce1 T C 19: 38,769,228 (GRCm39) probably null Het
Pmpca C A 2: 26,285,519 (GRCm39) D498E probably benign Het
Pnpla7 G T 2: 24,887,239 (GRCm39) E28* probably null Het
Polg C A 7: 79,111,632 (GRCm39) W206C probably damaging Het
Ptprt C T 2: 161,769,711 (GRCm39) probably benign Het
Slc7a14 T C 3: 31,281,209 (GRCm39) D367G probably damaging Het
Spata31 T C 13: 65,069,912 (GRCm39) Y687H probably damaging Het
Sybu T A 15: 44,536,389 (GRCm39) T646S probably benign Het
Thbs1 A T 2: 117,954,395 (GRCm39) probably null Het
Tie1 A G 4: 118,346,898 (GRCm39) V2A possibly damaging Het
Tma16 A T 8: 66,929,457 (GRCm39) I179K possibly damaging Het
Tns3 G A 11: 8,385,856 (GRCm39) Q1381* probably null Het
Trank1 A G 9: 111,172,263 (GRCm39) D84G probably damaging Het
Ttc3 A T 16: 94,223,106 (GRCm39) H197L possibly damaging Het
Urb1 A G 16: 90,576,028 (GRCm39) F843L probably benign Het
Vmn1r24 T G 6: 57,933,003 (GRCm39) I172L probably benign Het
Vmn2r1 T A 3: 64,012,209 (GRCm39) I690N possibly damaging Het
Vmn2r111 T A 17: 22,791,053 (GRCm39) I82L probably benign Het
Zfp287 A T 11: 62,605,764 (GRCm39) L370H possibly damaging Het
Zfp608 A T 18: 55,031,888 (GRCm39) I684N probably benign Het
Other mutations in Crlf3
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00690:Crlf3 APN 11 79,950,163 (GRCm39) missense probably damaging 1.00
IGL00835:Crlf3 APN 11 79,938,501 (GRCm39) missense probably benign 0.03
IGL01520:Crlf3 APN 11 79,950,972 (GRCm39) missense probably benign 0.01
IGL01998:Crlf3 APN 11 79,948,845 (GRCm39) unclassified probably benign
IGL02622:Crlf3 APN 11 79,950,150 (GRCm39) missense probably damaging 1.00
IGL02748:Crlf3 APN 11 79,950,145 (GRCm39) missense probably damaging 0.98
R0064:Crlf3 UTSW 11 79,948,728 (GRCm39) missense possibly damaging 0.81
R0076:Crlf3 UTSW 11 79,947,427 (GRCm39) unclassified probably benign
R0583:Crlf3 UTSW 11 79,950,107 (GRCm39) missense probably damaging 0.99
R1753:Crlf3 UTSW 11 79,948,698 (GRCm39) missense probably damaging 1.00
R2125:Crlf3 UTSW 11 79,950,081 (GRCm39) missense probably benign 0.21
R2571:Crlf3 UTSW 11 79,938,339 (GRCm39) missense probably benign 0.11
R5894:Crlf3 UTSW 11 79,948,678 (GRCm39) missense probably damaging 1.00
R6086:Crlf3 UTSW 11 79,939,436 (GRCm39) missense possibly damaging 0.81
R7214:Crlf3 UTSW 11 79,955,216 (GRCm39) missense possibly damaging 0.92
R7238:Crlf3 UTSW 11 79,947,351 (GRCm39) missense possibly damaging 0.94
R7511:Crlf3 UTSW 11 79,954,812 (GRCm39) splice site probably null
R8745:Crlf3 UTSW 11 79,955,100 (GRCm39) missense probably damaging 1.00
R8872:Crlf3 UTSW 11 79,938,440 (GRCm39) missense
R9297:Crlf3 UTSW 11 79,950,031 (GRCm39) missense probably damaging 1.00
X0064:Crlf3 UTSW 11 79,955,013 (GRCm39) splice site probably null
Predicted Primers PCR Primer
(F):5'- GGCAGGTTCCACAGTCTCTCAATTC -3'
(R):5'- CATACTGCCCCTGTTCAGCACATAG -3'

Sequencing Primer
(F):5'- TCAGGATTATCCTTAGGAAAAGTGGC -3'
(R):5'- CCTGTTCAGCACATAGACCTG -3'
Posted On 2013-05-09