Incidental Mutation 'R5696:Lin9'
ID 450638
Institutional Source Beutler Lab
Gene Symbol Lin9
Ensembl Gene ENSMUSG00000058729
Gene Name lin-9 DREAM MuvB core complex component
Synonyms 2700022J23Rik
Accession Numbers
Essential gene? Essential (E-score: 1.000) question?
Stock # R5696 (G1)
Quality Score 225
Status Not validated
Chromosome 1
Chromosomal Location 180468715-180518252 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to C at 180486646 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Serine to Proline at position 111 (S111P)
Ref Sequence ENSEMBL: ENSMUSP00000141331 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000192561] [ENSMUST00000192725] [ENSMUST00000193892]
AlphaFold no structure available at present
Predicted Effect probably benign
Transcript: ENSMUST00000085803
AA Change: S95P

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)
SMART Domains Protein: ENSMUSP00000082959
Gene: ENSMUSG00000058729
AA Change: S95P

DomainStartEndE-ValueType
DIRP 127 232 2.93e-67 SMART
coiled coil region 354 412 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000085804
SMART Domains Protein: ENSMUSP00000082960
Gene: ENSMUSG00000058729

DomainStartEndE-ValueType
DIRP 127 232 2.93e-67 SMART
coiled coil region 354 412 N/A INTRINSIC
transmembrane domain 416 438 N/A INTRINSIC
low complexity region 445 458 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000191744
Predicted Effect probably benign
Transcript: ENSMUST00000192561
AA Change: S111P

PolyPhen 2 Score 0.003 (Sensitivity: 0.98; Specificity: 0.44)
SMART Domains Protein: ENSMUSP00000141331
Gene: ENSMUSG00000058729
AA Change: S111P

DomainStartEndE-ValueType
DIRP 143 248 2.2e-71 SMART
coiled coil region 370 428 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000192725
AA Change: S71P

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)
SMART Domains Protein: ENSMUSP00000141503
Gene: ENSMUSG00000058729
AA Change: S71P

DomainStartEndE-ValueType
DIRP 103 208 2.2e-71 SMART
coiled coil region 330 388 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000193892
AA Change: S95P

PolyPhen 2 Score 0.002 (Sensitivity: 0.99; Specificity: 0.30)
SMART Domains Protein: ENSMUSP00000141530
Gene: ENSMUSG00000058729
AA Change: S95P

DomainStartEndE-ValueType
DIRP 127 232 2.2e-71 SMART
Predicted Effect probably benign
Transcript: ENSMUST00000194638
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.6%
  • 10x: 97.3%
  • 20x: 95.6%
Validation Efficiency
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a tumor suppressor protein that inhibits DNA synthesis and oncogenic transformation through association with the retinoblastoma 1 protein. The encoded protein also interacts with a complex of other cell cycle regulators to repress cell cycle-dependent gene expression in non-dividing cells. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Jul 2012]
PHENOTYPE: Mice homozygous for a knock-out allele show increased body weight. Mice homozygous for a gene-trap allele die shortly after implantation with defects in early embryogenesis. Homozygous deletion in adult mice causes premature death, intestinal epithelium atrophy, and abnormal mitosis. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 73 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Adam8 G A 7: 139,569,159 (GRCm39) R186W probably benign Het
Afg3l2 A G 18: 67,540,529 (GRCm39) I660T probably damaging Het
Amtn T A 5: 88,532,944 (GRCm39) Y186* probably null Het
Atosa A G 9: 74,917,399 (GRCm39) E666G probably benign Het
Atrip A G 9: 108,894,569 (GRCm39) S453P possibly damaging Het
Bahcc1 T C 11: 120,164,813 (GRCm39) L840P probably damaging Het
Capn2 T C 1: 182,306,165 (GRCm39) E527G possibly damaging Het
Caprin2 A T 6: 148,779,316 (GRCm39) Y164N possibly damaging Het
Ccnh T A 13: 85,344,446 (GRCm39) probably null Het
Cdon G T 9: 35,403,162 (GRCm39) V1091F possibly damaging Het
Ceacam14 A G 7: 17,548,267 (GRCm39) Y119C probably damaging Het
Ces2h A G 8: 105,745,611 (GRCm39) K445E possibly damaging Het
Cfap46 A G 7: 139,191,947 (GRCm39) S2357P probably damaging Het
Commd4 A T 9: 57,063,499 (GRCm39) S86R possibly damaging Het
Cpsf6 A T 10: 117,196,934 (GRCm39) probably benign Het
Dag1 A T 9: 108,086,646 (GRCm39) V165E probably benign Het
Dmxl1 A T 18: 50,065,008 (GRCm39) K2618* probably null Het
Dnah17 A G 11: 117,991,882 (GRCm39) Y1229H probably benign Het
Endov T A 11: 119,382,625 (GRCm39) L24Q probably damaging Het
Fap C T 2: 62,332,803 (GRCm39) V717M probably damaging Het
Fbxl2 A G 9: 113,815,546 (GRCm39) L239P probably damaging Het
Fbxl5 A T 5: 43,916,182 (GRCm39) V367D possibly damaging Het
Fkbp10 G T 11: 100,314,352 (GRCm39) W384L probably damaging Het
Gbp8 C T 5: 105,166,682 (GRCm39) V216I possibly damaging Het
Gclm G A 3: 122,059,936 (GRCm39) A239T probably benign Het
Gm11569 C T 11: 99,689,556 (GRCm39) probably benign Het
Gnas C A 2: 174,141,468 (GRCm39) probably benign Het
Grb10 T A 11: 11,883,566 (GRCm39) N508I probably benign Het
Gykl1 T G 18: 52,827,267 (GRCm39) I158M probably benign Het
Ide G A 19: 37,295,420 (GRCm39) T214M unknown Het
Il12rb2 T A 6: 67,272,262 (GRCm39) Q341H possibly damaging Het
Ints1 T C 5: 139,740,744 (GRCm39) E1946G probably benign Het
Kdelr3 T C 15: 79,410,100 (GRCm39) probably null Het
Kif1b A C 4: 149,358,306 (GRCm39) probably null Het
Kri1 A G 9: 21,191,533 (GRCm39) I320T probably damaging Het
Krt9 TCCACTTCCTCCTCCATAGCTGCCCCCACTTCCTCCTCCATAGCTGCCCCCACTTCCTCCTCCATAGCTGCCCCCACTTCCTCCTCCATAGCTGCC TCCACTTCCTCCTCCATAGCTGCCCCCACTTCCTCCTCCATAGCTGCCCCCACTTCCTCCTCCATAGCTGCC 11: 100,079,903 (GRCm39) probably benign Het
Lpcat2b C A 5: 107,580,773 (GRCm39) P34Q probably damaging Het
Ltk T A 2: 119,590,080 (GRCm39) T49S probably benign Het
Map3k9 A T 12: 81,780,896 (GRCm39) H421Q probably benign Het
Mapkbp1 T A 2: 119,852,201 (GRCm39) probably null Het
Mcm4 A G 16: 15,443,434 (GRCm39) S830P probably damaging Het
Nek10 T A 14: 14,860,736 (GRCm38) probably null Het
Nlrp9b A T 7: 19,758,417 (GRCm39) R551S probably benign Het
Nol4l T C 2: 153,260,026 (GRCm39) T143A probably damaging Het
Or1r1 T C 11: 73,875,362 (GRCm39) H24R possibly damaging Het
Or51g1 T A 7: 102,633,748 (GRCm39) T208S probably benign Het
Or6z5 T C 7: 6,477,742 (GRCm39) probably null Het
Or7a39 A T 10: 78,715,919 (GRCm39) R304S probably benign Het
Pde4dip G T 3: 97,616,806 (GRCm39) A1812D probably damaging Het
Plekhb1 C A 7: 100,305,960 (GRCm39) G26C probably damaging Het
Polr1a T A 6: 71,906,410 (GRCm39) F409I probably benign Het
Ptpn13 T A 5: 103,702,625 (GRCm39) M1197K probably benign Het
Qrich2 T C 11: 116,335,828 (GRCm39) I2114V probably damaging Het
Rbm27 T C 18: 42,450,731 (GRCm39) Y449H probably damaging Het
Rp1l1 A G 14: 64,267,195 (GRCm39) D927G probably damaging Het
Secisbp2 C A 13: 51,833,857 (GRCm39) Q666K probably damaging Het
Slc45a2 T C 15: 11,001,219 (GRCm39) I106T probably damaging Het
Slx4 G T 16: 3,797,831 (GRCm39) Q1518K probably damaging Het
Smim10l1 T C 6: 133,082,489 (GRCm39) F12S probably damaging Het
Son T C 16: 91,468,301 (GRCm39) V306A possibly damaging Het
Stab1 A G 14: 30,882,178 (GRCm39) S506P probably benign Het
Syne2 A C 12: 76,040,919 (GRCm39) D3859A probably benign Het
Tab1 T A 15: 80,032,930 (GRCm39) Y71* probably null Het
Tarbp1 A C 8: 127,174,079 (GRCm39) M909R probably damaging Het
Tex15 T G 8: 34,063,220 (GRCm39) S1157R probably benign Het
Tnni3 G A 7: 4,523,453 (GRCm39) T120I probably benign Het
Ttn T C 2: 76,747,888 (GRCm39) E4387G probably benign Het
Ugt3a1 G A 15: 9,361,534 (GRCm39) silent Het
Unc5d T C 8: 29,156,870 (GRCm39) I783V probably benign Het
Usp40 T C 1: 87,923,474 (GRCm39) T266A probably benign Het
Vmn2r59 C T 7: 41,695,468 (GRCm39) V315I probably benign Het
Zbtb48 G T 4: 152,105,067 (GRCm39) H532N probably damaging Het
Zfp1005 C T 2: 150,111,394 (GRCm39) H695Y possibly damaging Het
Other mutations in Lin9
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL02220:Lin9 APN 1 180,494,932 (GRCm39) missense probably damaging 1.00
IGL02221:Lin9 APN 1 180,478,399 (GRCm39) missense probably benign 0.03
IGL02233:Lin9 APN 1 180,516,865 (GRCm39) missense probably damaging 0.98
IGL02370:Lin9 APN 1 180,515,583 (GRCm39) missense probably damaging 1.00
IGL02794:Lin9 APN 1 180,479,444 (GRCm39) missense probably damaging 1.00
grosbeak UTSW 1 180,496,450 (GRCm39) critical splice donor site probably null
linnet UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R0278:Lin9 UTSW 1 180,493,488 (GRCm39) missense probably damaging 1.00
R1488:Lin9 UTSW 1 180,515,850 (GRCm39) missense possibly damaging 0.61
R3808:Lin9 UTSW 1 180,486,676 (GRCm39) missense probably null 0.32
R3809:Lin9 UTSW 1 180,486,676 (GRCm39) missense probably null 0.32
R3884:Lin9 UTSW 1 180,515,630 (GRCm39) nonsense probably null
R3978:Lin9 UTSW 1 180,496,357 (GRCm39) missense possibly damaging 0.94
R4600:Lin9 UTSW 1 180,508,759 (GRCm39) missense probably damaging 0.99
R4625:Lin9 UTSW 1 180,516,845 (GRCm39) missense probably damaging 0.99
R4730:Lin9 UTSW 1 180,493,416 (GRCm39) nonsense probably null
R4987:Lin9 UTSW 1 180,496,329 (GRCm39) missense probably damaging 1.00
R5034:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5035:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5045:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5046:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5148:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5180:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5181:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5221:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5222:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5329:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5332:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5633:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5634:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5812:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5813:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5814:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R5851:Lin9 UTSW 1 180,496,763 (GRCm39) missense probably benign 0.01
R7046:Lin9 UTSW 1 180,494,935 (GRCm39) missense probably damaging 1.00
R7084:Lin9 UTSW 1 180,515,661 (GRCm39) missense probably benign 0.11
R8163:Lin9 UTSW 1 180,486,691 (GRCm39) missense probably damaging 1.00
R8421:Lin9 UTSW 1 180,493,365 (GRCm39) missense probably damaging 1.00
R8776:Lin9 UTSW 1 180,496,450 (GRCm39) critical splice donor site probably null
R8776-TAIL:Lin9 UTSW 1 180,496,450 (GRCm39) critical splice donor site probably null
R9264:Lin9 UTSW 1 180,494,912 (GRCm39) missense probably damaging 0.99
R9283:Lin9 UTSW 1 180,493,493 (GRCm39) missense probably damaging 1.00
R9696:Lin9 UTSW 1 180,496,733 (GRCm39) missense possibly damaging 0.60
Z1177:Lin9 UTSW 1 180,478,367 (GRCm39) missense probably benign 0.08
Predicted Primers PCR Primer
(F):5'- GACTGTTATTGAGTCTTTTGAGCAC -3'
(R):5'- TACAGAAGAGGTGACAGCTTATAAC -3'

Sequencing Primer
(F):5'- CTGGCAGTCCTGGAACTCAATTTG -3'
(R):5'- GAAGAGGTGACAGCTTATAACATTTG -3'
Posted On 2017-01-03