Mutagenetix > Incidental Mutation

Incidental Mutation 'R6246:Ints11'

505768

Institutional Source

Beutler Lab

Gene Symbol

Ints11

Ensembl Gene

ENSMUSG00000029034

Gene Name

integrator complex subunit 11

Synonyms

Cpsf3l, 2410006F12Rik

MMRRC Submission

044436-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R6246 (G1)

Quality Score

225.009

Status

Validated

Chromosome

Chromosomal Location

155954006-155973561 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

A to G at 155972546 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Threonine to Alanine at position 460 (T460A)

Ref Sequence

ENSEMBL: ENSMUSP00000112656 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000030901] [ENSMUST00000079031] [ENSMUST00000097737] [ENSMUST00000105584] [ENSMUST00000120794] [ENSMUST00000156460]

AlphaFold

Q9CWS4

Predicted Effect

probably benign
Transcript: ENSMUST00000030901
AA Change: T482A

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)

SMART Domains

Protein: ENSMUSP00000030901
Gene: ENSMUSG00000029034
AA Change: T482A

Domain	Start	End	E-Value	Type
Lactamase_B	16	233	3.38e-17	SMART
Beta-Casp	245	363	6.94e-37	SMART
Pfam:RMMBL	376	418	1.1e-16	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000079031

SMART Domains

Protein: ENSMUSP00000078040
Gene: ENSMUSG00000029033

Domain	Start	End	E-Value	Type
low complexity region	17	31	N/A	INTRINSIC
PH	265	361	6.35e-16	SMART
low complexity region	377	391	N/A	INTRINSIC
ArfGap	399	521	4.62e-56	SMART
low complexity region	554	566	N/A	INTRINSIC
low complexity region	601	617	N/A	INTRINSIC
low complexity region	628	650	N/A	INTRINSIC
low complexity region	669	686	N/A	INTRINSIC
ANK	696	725	3.91e-3	SMART
ANK	729	758	2.43e1	SMART
low complexity region	781	796	N/A	INTRINSIC
low complexity region	797	809	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000097737

SMART Domains

Protein: ENSMUSP00000095344
Gene: ENSMUSG00000051557

Domain	Start	End	E-Value	Type
Pfam:PseudoU_synth_1	16	124	2.5e-12	PFAM
Pfam:PseudoU_synth_1	168	285	1.1e-17	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000105584

SMART Domains

Protein: ENSMUSP00000101209
Gene: ENSMUSG00000029033

Domain	Start	End	E-Value	Type
Pfam:BAR_3	3	236	4.1e-95	PFAM
PH	269	365	6.35e-16	SMART
low complexity region	381	395	N/A	INTRINSIC
ArfGap	403	525	4.62e-56	SMART
low complexity region	558	570	N/A	INTRINSIC
low complexity region	605	621	N/A	INTRINSIC
low complexity region	632	654	N/A	INTRINSIC
low complexity region	673	690	N/A	INTRINSIC
ANK	700	729	3.91e-3	SMART
ANK	733	762	2.43e1	SMART
low complexity region	785	800	N/A	INTRINSIC
low complexity region	801	813	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000120794
AA Change: T460A

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)

SMART Domains

Protein: ENSMUSP00000112656
Gene: ENSMUSG00000029034
AA Change: T460A

Domain	Start	End	E-Value	Type
Lactamase_B	16	211	6.42e-9	SMART
Beta-Casp	223	341	6.94e-37	SMART
Pfam:RMMBL	354	396	3.6e-16	PFAM

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000123504

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000126582

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000142566

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000142724

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000137726

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000150446

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000131168

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000134678

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000130146

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000132632

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000135844

Predicted Effect

probably benign
Transcript: ENSMUST00000156460

SMART Domains

Protein: ENSMUSP00000118803
Gene: ENSMUSG00000029034

Domain	Start	End	E-Value	Type
SCOP:d1smla_	1	66	7e-7	SMART
PDB:2I7V\|A	3	38	1e-9	PDB
Blast:Lactamase_B	16	66	4e-30	BLAST

Predicted Effect

noncoding transcript
Transcript: ENSMUST00000129637

Meta Mutation Damage Score

0.0879

Coding Region Coverage

1x: 99.9%
3x: 99.7%
10x: 98.4%
20x: 95.6%

Validation Efficiency

100% (78/78)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The Integrator complex contains at least 12 subunits and associates with the C-terminal domain of RNA polymerase II large subunit (POLR2A; MIM 180660) and mediates the 3-prime end processing of small nuclear RNAs U1 (RNU1; MIM 180680) and U2 (RNU2; MIM 180690). INTS11, or CPSF3L, is the catalytic subunit of the Integrator complex (Baillat et al., 2005 [PubMed 16239144]).[supplied by OMIM, Mar 2008]

Allele List at MGI

Other mutations in this stock

Total: 81 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Abca7	T	A	10: 79,850,999 (GRCm39)	V2110E	probably damaging	Het
Acaca	C	A	11: 84,206,796 (GRCm39)	T1552K	probably benign	Het
Aknad1	A	G	3: 108,659,148 (GRCm39)	D54G	probably damaging	Het
Ano1	T	C	7: 144,187,462 (GRCm39)	T435A	possibly damaging	Het
Azgp1	A	G	5: 137,983,475 (GRCm39)	D50G	possibly damaging	Het
Bbx	A	G	16: 50,045,023 (GRCm39)	S513P	probably benign	Het
Ccdc85a	C	T	11: 28,526,897 (GRCm39)	S209N	probably damaging	Het
Cdca2	T	A	14: 67,915,277 (GRCm39)	R661*	probably null	Het
Cdhr2	T	C	13: 54,867,523 (GRCm39)	V451A	probably damaging	Het
Cenpt	C	T	8: 106,575,891 (GRCm39)	G152S	possibly damaging	Het
Chd9	A	G	8: 91,659,045 (GRCm39)	T2A	probably damaging	Het
Chst14	G	A	2: 118,757,482 (GRCm39)	C117Y	probably damaging	Het
Cic	C	T	7: 24,971,067 (GRCm39)	T266M	probably damaging	Het
Clec12a	A	T	6: 129,330,733 (GRCm39)	N105I	possibly damaging	Het
Cmah	G	A	13: 24,650,773 (GRCm39)	V525M	probably damaging	Het
Cplane1	T	A	15: 8,239,498 (GRCm39)	L1233H	probably damaging	Het
Cpt1a	T	C	19: 3,426,550 (GRCm39)	L572P	probably damaging	Het
Crybg2	T	C	4: 133,816,657 (GRCm39)	L1365P	probably damaging	Het
Dab1	C	T	4: 104,588,948 (GRCm39)	A524V	probably benign	Het
Dlg1	G	A	16: 31,484,468 (GRCm39)	S32N	probably benign	Het
Dnah14	T	C	1: 181,508,453 (GRCm39)	I1877T	probably benign	Het
Duox1	G	T	2: 122,157,655 (GRCm39)	G594C	probably damaging	Het
Eci2	T	C	13: 35,174,181 (GRCm39)	N127D	probably damaging	Het
Ecpas	A	G	4: 58,811,365 (GRCm39)		probably null	Het
Fat4	T	C	3: 38,945,870 (GRCm39)	S1588P	probably damaging	Het
Fer1l4	T	A	2: 155,866,902 (GRCm39)	I1489F	probably damaging	Het
Flrt3	A	G	2: 140,501,721 (GRCm39)	Y636H	probably damaging	Het
Frmd5	T	A	2: 121,381,529 (GRCm39)	H62L	possibly damaging	Het
Gm6309	A	T	5: 146,107,050 (GRCm39)	Y99N	probably damaging	Het
Gm8225	T	C	17: 26,762,652 (GRCm39)	V281A	probably benign	Het
Grep1	C	A	17: 23,929,465 (GRCm39)	G315*	probably null	Het
Grsf1	A	G	5: 88,810,451 (GRCm39)	L353P	possibly damaging	Het
Gtf2a1l	A	G	17: 88,978,975 (GRCm39)	R58G	probably benign	Het
Guf1	G	A	5: 69,715,898 (GRCm39)	G113R	probably damaging	Het
Hfe	A	T	13: 23,892,212 (GRCm39)	F51I	probably damaging	Het
Hibch	T	C	1: 52,943,801 (GRCm39)	S250P	probably damaging	Het
Il1rap	T	A	16: 26,533,631 (GRCm39)	M509K	probably benign	Het
Il4ra	T	C	7: 125,175,577 (GRCm39)	V595A	probably benign	Het
Itprid1	A	T	6: 55,944,657 (GRCm39)	K459N	probably damaging	Het
Kdm5a	G	A	6: 120,408,871 (GRCm39)	G1518E	probably damaging	Het
Khsrp	T	C	17: 57,332,324 (GRCm39)	D289G	possibly damaging	Het
Kif14	C	T	1: 136,404,162 (GRCm39)	Q29*	probably null	Het
Krt72	T	C	15: 101,689,372 (GRCm39)	K320R	probably damaging	Het
Lcmt2	A	G	2: 120,970,870 (GRCm39)	L71P	probably damaging	Het
Lmo7	A	T	14: 102,156,136 (GRCm39)	D1037V	probably damaging	Het
Lpo	T	C	11: 87,713,058 (GRCm39)	T15A	unknown	Het
Mia3	G	T	1: 183,126,720 (GRCm39)	T7N	probably damaging	Het
Muc16	A	T	9: 18,488,363 (GRCm39)		probably null	Het
Mup9	T	A	4: 60,375,809 (GRCm39)	Y29F	probably damaging	Het
Nisch	T	C	14: 30,894,516 (GRCm39)	D1105G	probably damaging	Het
Odad1	A	G	7: 45,585,788 (GRCm39)	I116V	probably damaging	Het
Oip5	T	C	2: 119,446,101 (GRCm39)	T136A	probably benign	Het
Or2a52	G	A	6: 43,144,436 (GRCm39)		probably null	Het
Osbpl10	C	A	9: 115,055,842 (GRCm39)	N532K	probably benign	Het
P2ry12	C	T	3: 59,124,950 (GRCm39)	V242I	probably benign	Het
Pdhx	A	T	2: 102,877,137 (GRCm39)	C26S	probably damaging	Het
Pgk2	A	T	17: 40,518,315 (GRCm39)	I371K	probably damaging	Het
Phyhip	T	C	14: 70,704,495 (GRCm39)	V238A	probably damaging	Het
Pla2g4a	G	A	1: 149,748,338 (GRCm39)	T282I	probably damaging	Het
Pld5	A	T	1: 175,791,475 (GRCm39)	C448*	probably null	Het
Plk1	T	A	7: 121,768,659 (GRCm39)	I553N	probably damaging	Het
Ppp1r13l	T	A	7: 19,103,783 (GRCm39)	I88K	probably benign	Het
Rad54l2	A	G	9: 106,577,692 (GRCm39)		probably null	Het
Septin7	A	G	9: 25,218,817 (GRCm39)	E428G	probably benign	Het
Serpina3j	G	A	12: 104,283,706 (GRCm39)	G268D	probably damaging	Het
Smc2	A	T	4: 52,460,289 (GRCm39)	D555V	probably damaging	Het
Spag16	A	T	1: 69,962,980 (GRCm39)	I376F	probably benign	Het
Spag6	G	A	2: 18,703,906 (GRCm39)		probably null	Het
Tecta	T	C	9: 42,289,204 (GRCm39)	I454V	probably benign	Het
Tlcd3b	T	A	7: 126,426,668 (GRCm39)	F30L	probably damaging	Het
Tm9sf1	C	T	14: 55,873,827 (GRCm39)	R557H	probably damaging	Het
Traf5	C	T	1: 191,754,853 (GRCm39)	E28K	probably damaging	Het
Trav23	G	A	14: 54,214,885 (GRCm39)	E33K	probably damaging	Het
Trim32	T	C	4: 65,532,801 (GRCm39)	S453P	probably damaging	Het
Tssk1	A	G	16: 17,713,303 (GRCm39)	T363A	probably benign	Het
Txnrd3	A	G	6: 89,628,523 (GRCm39)	N88S	probably benign	Het
Unc13b	A	G	4: 43,216,246 (GRCm39)	S182G	probably benign	Het
Vmn2r89	A	T	14: 51,693,503 (GRCm39)	R284S	probably damaging	Het
Zbtb14	A	G	17: 69,694,478 (GRCm39)	T59A	possibly damaging	Het
Zcchc2	T	A	1: 105,957,796 (GRCm39)	S756T	possibly damaging	Het
Zfp709	TCGACG	TCG	8: 72,644,552 (GRCm39)		probably benign	Het

Other mutations in Ints11

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01145:Ints11	APN	4	155,969,583 (GRCm39)	missense	probably damaging	1.00
IGL01515:Ints11	APN	4	155,959,689 (GRCm39)	missense	probably damaging	1.00
IGL01613:Ints11	APN	4	155,969,655 (GRCm39)	critical splice donor site	probably null
IGL02024:Ints11	APN	4	155,972,972 (GRCm39)	missense	probably damaging	1.00
IGL02127:Ints11	APN	4	155,971,320 (GRCm39)	missense	probably damaging	1.00
IGL02850:Ints11	APN	4	155,959,761 (GRCm39)	missense	probably benign	0.03
IGL02926:Ints11	APN	4	155,972,568 (GRCm39)	critical splice donor site	probably null
IGL03296:Ints11	APN	4	155,969,780 (GRCm39)	critical splice donor site	probably null
IGL03357:Ints11	APN	4	155,956,581 (GRCm39)	splice site	probably benign
R0013:Ints11	UTSW	4	155,971,625 (GRCm39)	missense	probably damaging	1.00
R0013:Ints11	UTSW	4	155,971,625 (GRCm39)	missense	probably damaging	1.00
R0449:Ints11	UTSW	4	155,972,405 (GRCm39)	missense	probably benign	0.17
R0480:Ints11	UTSW	4	155,972,081 (GRCm39)	missense	probably damaging	1.00
R0589:Ints11	UTSW	4	155,971,343 (GRCm39)	missense	probably damaging	1.00
R0678:Ints11	UTSW	4	155,972,210 (GRCm39)	missense	probably damaging	1.00
R0865:Ints11	UTSW	4	155,971,564 (GRCm39)	splice site	probably null
R1135:Ints11	UTSW	4	155,972,384 (GRCm39)	splice site	probably null
R1466:Ints11	UTSW	4	155,972,567 (GRCm39)	critical splice donor site	probably null
R1466:Ints11	UTSW	4	155,972,567 (GRCm39)	critical splice donor site	probably null
R1658:Ints11	UTSW	4	155,972,185 (GRCm39)	missense	probably damaging	0.97
R1707:Ints11	UTSW	4	155,959,655 (GRCm39)	missense	probably benign	0.21
R2199:Ints11	UTSW	4	155,959,738 (GRCm39)	missense	probably benign	0.07
R2876:Ints11	UTSW	4	155,971,882 (GRCm39)	unclassified	probably benign
R4567:Ints11	UTSW	4	155,970,132 (GRCm39)	missense	probably damaging	1.00
R4900:Ints11	UTSW	4	155,972,887 (GRCm39)	missense	probably benign	0.01
R4964:Ints11	UTSW	4	155,971,385 (GRCm39)	missense	probably damaging	1.00
R4966:Ints11	UTSW	4	155,971,385 (GRCm39)	missense	probably damaging	1.00
R5306:Ints11	UTSW	4	155,959,665 (GRCm39)	missense	probably damaging	1.00
R5963:Ints11	UTSW	4	155,957,369 (GRCm39)	nonsense	probably null
R7285:Ints11	UTSW	4	155,970,568 (GRCm39)	missense	probably damaging	1.00
R7365:Ints11	UTSW	4	155,956,687 (GRCm39)	splice site	probably null
R7768:Ints11	UTSW	4	155,971,396 (GRCm39)	missense	probably damaging	0.97
R7774:Ints11	UTSW	4	155,970,140 (GRCm39)	missense	probably benign	0.00
R7999:Ints11	UTSW	4	155,971,413 (GRCm39)	missense	probably benign	0.12
R8103:Ints11	UTSW	4	155,972,687 (GRCm39)	missense	possibly damaging	0.93
R8785:Ints11	UTSW	4	155,954,165 (GRCm39)	missense	probably benign	0.17
R8825:Ints11	UTSW	4	155,969,587 (GRCm39)	nonsense	probably null
Z1088:Ints11	UTSW	4	155,971,427 (GRCm39)	missense	probably benign	0.41

Predicted Primers

PCR Primer
(F):5'- CAATGGTGAGACAGTGACGC -3'
(R):5'- CACACGTAAAGCTGTTTCTTGTTC -3'

Sequencing Primer
(F):5'- AAGCCCTAGCATCCCTGTG -3'
(R):5'- GCAGGTGCACACGACAG -3'

Posted On

2018-02-28