Incidental Mutation 'R4133:Ints9'
ID 314769
Institutional Source Beutler Lab
Gene Symbol Ints9
Ensembl Gene ENSMUSG00000021975
Gene Name integrator complex subunit 9
Synonyms D14Ertd231e
MMRRC Submission 041637-MU
Accession Numbers
Essential gene? Essential (E-score: 1.000) question?
Stock # R4133 (G1)
Quality Score 225
Status Validated
Chromosome 14
Chromosomal Location 64950045-65039832 bp(+) (GRCm38)
Type of Mutation missense
DNA Base Change (assembly) A to G at 64990554 bp (GRCm38)
Zygosity Heterozygous
Amino Acid Change Histidine to Arginine at position 103 (H103R)
Ref Sequence ENSEMBL: ENSMUSP00000045552 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000043914]
AlphaFold Q8K114
Predicted Effect probably benign
Transcript: ENSMUST00000043914
AA Change: H103R

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)
SMART Domains Protein: ENSMUSP00000045552
Gene: ENSMUSG00000021975
AA Change: H103R

DomainStartEndE-ValueType
Pfam:Lactamase_B_6 91 289 1.2e-17 PFAM
Beta-Casp 334 462 7.65e-16 SMART
low complexity region 583 596 N/A INTRINSIC
low complexity region 672 682 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000224593
Predicted Effect noncoding transcript
Transcript: ENSMUST00000225790
Meta Mutation Damage Score 0.0702 question?
Coding Region Coverage
  • 1x: 99.4%
  • 3x: 98.7%
  • 10x: 97.4%
  • 20x: 95.5%
Validation Efficiency 97% (77/79)
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a subunit of the Integrator complex. This protein complex binds the C-terminal domain of RNA polymerase II and likely plays a role in small nuclear RNA processing. The encoded protein has similarities to the subunits of the cleavage and polyadenylation specificity factor complex. Alternatively spliced transcript variants have been described.[provided by RefSeq, Feb 2010]
Allele List at MGI
Other mutations in this stock
Total: 75 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
1700036A12Rik T A 9: 60,769,998 (GRCm38) noncoding transcript Het
Aldh3b1 A G 19: 3,920,808 (GRCm38) I184T probably damaging Het
Arhgap42 C T 9: 9,011,299 (GRCm38) probably benign Het
Arhgef4 A G 1: 34,806,104 (GRCm38) D1463G probably damaging Het
Arpc5 A G 1: 152,768,871 (GRCm38) T52A probably benign Het
Asb6 A G 2: 30,828,235 (GRCm38) probably benign Het
Ash1l T C 3: 88,982,260 (GRCm38) V482A probably benign Het
Bop1 T C 15: 76,454,335 (GRCm38) N469S probably benign Het
Btaf1 T A 19: 36,961,738 (GRCm38) N266K probably benign Het
Btla T C 16: 45,239,298 (GRCm38) Y122H probably damaging Het
Cacna1g A G 11: 94,432,544 (GRCm38) M1278T probably damaging Het
Cdc42bpb A G 12: 111,321,542 (GRCm38) S524P probably benign Het
Cep78 A G 19: 15,969,155 (GRCm38) S438P probably damaging Het
Clca4a T G 3: 144,969,352 (GRCm38) E171D probably benign Het
Cldn6 A T 17: 23,681,493 (GRCm38) I144F probably damaging Het
Cpd G A 11: 76,814,818 (GRCm38) Q363* probably null Het
Cpn1 G A 19: 43,986,284 (GRCm38) P2L possibly damaging Het
Ddx31 A G 2: 28,858,852 (GRCm38) D264G probably damaging Het
Ddx39b C T 17: 35,253,089 (GRCm38) S368L probably damaging Het
Ddx60 A G 8: 61,972,220 (GRCm38) K681E probably damaging Het
Dennd1c A C 17: 57,076,980 (GRCm38) W15G possibly damaging Het
Dgkd T G 1: 87,941,501 (GRCm38) probably null Het
Dnah7c G T 1: 46,665,990 (GRCm38) A2388S probably benign Het
Etv4 C A 11: 101,770,498 (GRCm38) K442N probably damaging Het
Fam234a T C 17: 26,213,558 (GRCm38) D539G probably damaging Het
Fam71a A T 1: 191,163,008 (GRCm38) N479K probably benign Het
Fancm A G 12: 65,120,530 (GRCm38) T1538A probably benign Het
Fbn2 A T 18: 58,095,962 (GRCm38) N725K possibly damaging Het
Fcer2a T A 8: 3,691,130 (GRCm38) N4I possibly damaging Het
Fgd5 T C 6: 92,069,437 (GRCm38) V1229A probably damaging Het
Gm5471 A T 15: 44,971,901 (GRCm38) noncoding transcript Het
Gm5478 T A 15: 101,644,645 (GRCm38) I331F probably damaging Het
Gm6729 C A 10: 86,541,166 (GRCm38) noncoding transcript Het
Hectd4 G T 5: 121,277,834 (GRCm38) probably null Het
Hspb3 A C 13: 113,663,491 (GRCm38) M1R probably null Het
Igkv10-95 T C 6: 68,680,617 (GRCm38) V19A probably damaging Het
Il1rap A G 16: 26,722,886 (GRCm38) S626G probably benign Het
Itga4 T A 2: 79,322,652 (GRCm38) D894E probably damaging Het
Khsrp T C 17: 57,025,605 (GRCm38) H225R probably benign Het
Lama1 T C 17: 67,750,655 (GRCm38) Y575H probably damaging Het
Lama1 A T 17: 67,812,486 (GRCm38) I2653F probably damaging Het
Map4k5 A T 12: 69,845,723 (GRCm38) L144Q probably damaging Het
Mcm5 A G 8: 75,115,854 (GRCm38) Y252C probably damaging Het
Mmgt2 A G 11: 62,665,051 (GRCm38) E75G probably damaging Het
Mroh2a A T 1: 88,254,965 (GRCm38) N1205I possibly damaging Het
Nckap5 A G 1: 126,222,706 (GRCm38) V162A probably benign Het
Nr3c2 T C 8: 76,909,749 (GRCm38) I493T probably damaging Het
Olfr1411 T C 1: 92,596,743 (GRCm38) F75L probably benign Het
Olfr325 A T 11: 58,581,075 (GRCm38) Y77F probably damaging Het
Olfr698 A C 7: 106,753,079 (GRCm38) L103R probably damaging Het
Papola A G 12: 105,799,658 (GRCm38) T6A possibly damaging Het
Ppp1cc G A 5: 122,168,226 (GRCm38) R36Q probably benign Het
Ptpro G T 6: 137,420,372 (GRCm38) W81C probably damaging Het
Rasgrf2 A G 13: 91,982,654 (GRCm38) S162P possibly damaging Het
Rpusd2 T C 2: 119,038,715 (GRCm38) S540P probably damaging Het
Scn5a T A 9: 119,486,372 (GRCm38) T1757S probably damaging Het
Setbp1 T C 18: 78,856,991 (GRCm38) I1154V probably benign Het
Sirt1 T C 10: 63,335,659 (GRCm38) I209V probably null Het
Slco6c1 T A 1: 97,081,493 (GRCm38) I406L probably benign Het
Smc2 A G 4: 52,450,947 (GRCm38) E255G probably damaging Het
Snap91 C A 9: 86,777,049 (GRCm38) G477V probably damaging Het
Speg A G 1: 75,427,904 (GRCm38) Q2780R probably benign Het
Ssh2 A G 11: 77,421,269 (GRCm38) Y196C probably damaging Het
Ssxb9 A T X: 8,369,606 (GRCm38) T18S probably damaging Het
Stxbp5l T C 16: 37,208,119 (GRCm38) I527M possibly damaging Het
Tex10 T C 4: 48,468,968 (GRCm38) Y69C probably damaging Het
Theg T C 10: 79,580,050 (GRCm38) T236A probably damaging Het
Thoc3 T C 13: 54,468,548 (GRCm38) D87G probably benign Het
Top2b T G 14: 16,409,189 (GRCm38) I777M probably damaging Het
Trps1 T C 15: 50,831,387 (GRCm38) K213R probably damaging Het
Uggt1 A T 1: 36,158,159 (GRCm38) L1221Q probably damaging Het
Vmn2r3 T A 3: 64,275,717 (GRCm38) Y187F probably damaging Het
Washc2 G A 6: 116,258,930 (GRCm38) E1121K probably damaging Het
Zfx T C X: 94,080,858 (GRCm38) N360D probably damaging Het
Znhit3 A G 11: 84,916,313 (GRCm38) V10A probably benign Het
Other mutations in Ints9
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL01143:Ints9 APN 14 65,037,421 (GRCm38) missense probably benign 0.00
IGL02374:Ints9 APN 14 65,039,333 (GRCm38) missense probably benign 0.00
IGL02728:Ints9 APN 14 64,993,008 (GRCm38) missense probably damaging 1.00
IGL02992:Ints9 APN 14 64,980,164 (GRCm38) missense probably benign 0.08
IGL03151:Ints9 APN 14 65,032,340 (GRCm38) missense possibly damaging 0.86
R0437:Ints9 UTSW 14 64,986,369 (GRCm38) splice site probably benign
R0582:Ints9 UTSW 14 64,980,149 (GRCm38) missense probably damaging 1.00
R1525:Ints9 UTSW 14 64,995,011 (GRCm38) missense probably benign 0.05
R1569:Ints9 UTSW 14 64,980,122 (GRCm38) missense possibly damaging 0.91
R1835:Ints9 UTSW 14 65,032,256 (GRCm38) missense probably damaging 1.00
R1839:Ints9 UTSW 14 65,016,530 (GRCm38) missense probably damaging 1.00
R1862:Ints9 UTSW 14 65,026,413 (GRCm38) missense probably benign
R1892:Ints9 UTSW 14 65,020,423 (GRCm38) missense probably benign 0.08
R2146:Ints9 UTSW 14 64,986,343 (GRCm38) missense possibly damaging 0.71
R2285:Ints9 UTSW 14 65,007,997 (GRCm38) missense possibly damaging 0.61
R3015:Ints9 UTSW 14 64,950,278 (GRCm38) missense probably benign 0.00
R4180:Ints9 UTSW 14 64,992,981 (GRCm38) missense probably damaging 1.00
R4509:Ints9 UTSW 14 65,028,932 (GRCm38) missense possibly damaging 0.96
R4510:Ints9 UTSW 14 65,028,932 (GRCm38) missense possibly damaging 0.96
R4511:Ints9 UTSW 14 65,028,932 (GRCm38) missense possibly damaging 0.96
R4608:Ints9 UTSW 14 65,032,280 (GRCm38) missense possibly damaging 0.82
R5023:Ints9 UTSW 14 64,980,228 (GRCm38) missense probably damaging 1.00
R5117:Ints9 UTSW 14 64,993,091 (GRCm38) nonsense probably null
R5261:Ints9 UTSW 14 65,008,072 (GRCm38) missense probably benign 0.25
R5582:Ints9 UTSW 14 65,028,896 (GRCm38) missense possibly damaging 0.83
R5990:Ints9 UTSW 14 65,039,328 (GRCm38) missense probably damaging 1.00
R6009:Ints9 UTSW 14 65,008,082 (GRCm38) missense probably benign 0.43
R6241:Ints9 UTSW 14 64,980,210 (GRCm38) missense possibly damaging 0.90
R6351:Ints9 UTSW 14 64,993,007 (GRCm38) missense probably damaging 0.98
R6821:Ints9 UTSW 14 65,037,458 (GRCm38) missense probably benign 0.20
R7422:Ints9 UTSW 14 65,032,298 (GRCm38) missense possibly damaging 0.93
R7442:Ints9 UTSW 14 64,995,064 (GRCm38) nonsense probably null
R7475:Ints9 UTSW 14 65,026,465 (GRCm38) missense probably null 0.23
R8183:Ints9 UTSW 14 65,036,453 (GRCm38) missense probably damaging 0.98
R8223:Ints9 UTSW 14 65,020,360 (GRCm38) missense possibly damaging 0.94
R8282:Ints9 UTSW 14 65,007,308 (GRCm38) missense probably benign 0.00
R8314:Ints9 UTSW 14 65,029,030 (GRCm38) missense probably damaging 1.00
R8341:Ints9 UTSW 14 65,036,414 (GRCm38) missense probably benign 0.14
R8548:Ints9 UTSW 14 65,032,321 (GRCm38) missense probably benign 0.39
R9356:Ints9 UTSW 14 65,032,321 (GRCm38) missense probably benign 0.39
R9434:Ints9 UTSW 14 65,008,057 (GRCm38) missense probably benign 0.00
Z1176:Ints9 UTSW 14 65,037,454 (GRCm38) missense probably benign 0.00
Predicted Primers PCR Primer
(F):5'- GTGTTTTCACCCTCAGTCGG -3'
(R):5'- GAAGGTTGCAAGAGTCAGTGCC -3'

Sequencing Primer
(F):5'- ACCCTCTCAGTTAGGTGAG -3'
(R):5'- AGAGTCAGTGCCATCTCTGATAC -3'
Posted On 2015-05-14