Incidental Mutation 'R2307:Rpap1'
ID 244618
Institutional Source Beutler Lab
Gene Symbol Rpap1
Ensembl Gene ENSMUSG00000034032
Gene Name RNA polymerase II associated protein 1
Synonyms A730023M06Rik, 1190005L06Rik
MMRRC Submission 040306-MU
Accession Numbers
Essential gene? Probably essential (E-score: 0.966) question?
Stock # R2307 (G1)
Quality Score 157
Status Not validated
Chromosome 2
Chromosomal Location 119594440-119618018 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) G to A at 119614247 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Proline to Leucine at position 50 (P50L)
Ref Sequence ENSEMBL: ENSMUSP00000138619 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000048493] [ENSMUST00000099529] [ENSMUST00000110793] [ENSMUST00000136419] [ENSMUST00000184294]
AlphaFold Q80TE0
Predicted Effect probably benign
Transcript: ENSMUST00000048493
AA Change: P50L

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)
SMART Domains Protein: ENSMUSP00000037275
Gene: ENSMUSG00000034032
AA Change: P50L

DomainStartEndE-ValueType
low complexity region 62 81 N/A INTRINSIC
Pfam:RPAP1_N 225 270 2.4e-21 PFAM
Pfam:RPAP1_C 372 438 1.9e-27 PFAM
low complexity region 451 473 N/A INTRINSIC
low complexity region 476 488 N/A INTRINSIC
low complexity region 515 529 N/A INTRINSIC
low complexity region 739 752 N/A INTRINSIC
low complexity region 843 860 N/A INTRINSIC
low complexity region 989 1007 N/A INTRINSIC
low complexity region 1042 1052 N/A INTRINSIC
low complexity region 1097 1108 N/A INTRINSIC
low complexity region 1193 1204 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000099529
AA Change: P50L

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)
SMART Domains Protein: ENSMUSP00000097127
Gene: ENSMUSG00000034032
AA Change: P50L

DomainStartEndE-ValueType
low complexity region 62 81 N/A INTRINSIC
Pfam:RPAP1_N 224 272 1.7e-21 PFAM
Pfam:RPAP1_C 370 440 2.9e-27 PFAM
low complexity region 451 473 N/A INTRINSIC
low complexity region 476 488 N/A INTRINSIC
low complexity region 515 529 N/A INTRINSIC
low complexity region 739 752 N/A INTRINSIC
low complexity region 843 860 N/A INTRINSIC
low complexity region 989 1007 N/A INTRINSIC
low complexity region 1042 1052 N/A INTRINSIC
low complexity region 1097 1108 N/A INTRINSIC
low complexity region 1193 1204 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000110793
AA Change: P50L

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)
SMART Domains Protein: ENSMUSP00000106420
Gene: ENSMUSG00000034032
AA Change: P50L

DomainStartEndE-ValueType
low complexity region 62 81 N/A INTRINSIC
Pfam:RPAP1_N 224 272 1.7e-21 PFAM
Pfam:RPAP1_C 370 440 2.9e-27 PFAM
low complexity region 451 473 N/A INTRINSIC
low complexity region 476 488 N/A INTRINSIC
low complexity region 515 529 N/A INTRINSIC
low complexity region 739 752 N/A INTRINSIC
low complexity region 843 860 N/A INTRINSIC
low complexity region 989 1007 N/A INTRINSIC
low complexity region 1042 1052 N/A INTRINSIC
low complexity region 1097 1108 N/A INTRINSIC
low complexity region 1193 1204 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000133146
Predicted Effect probably benign
Transcript: ENSMUST00000136419
AA Change: P50L

PolyPhen 2 Score 0.001 (Sensitivity: 0.99; Specificity: 0.15)
SMART Domains Protein: ENSMUSP00000138619
Gene: ENSMUSG00000034032
AA Change: P50L

DomainStartEndE-ValueType
low complexity region 62 81 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000139311
Predicted Effect noncoding transcript
Transcript: ENSMUST00000156506
Predicted Effect probably benign
Transcript: ENSMUST00000184294
AA Change: P50L

PolyPhen 2 Score 0.000 (Sensitivity: 1.00; Specificity: 0.00)
SMART Domains Protein: ENSMUSP00000138873
Gene: ENSMUSG00000034032
AA Change: P50L

DomainStartEndE-ValueType
low complexity region 62 81 N/A INTRINSIC
Pfam:RPAP1_N 224 272 4.8e-22 PFAM
Pfam:RPAP1_C 370 440 1.2e-27 PFAM
low complexity region 451 473 N/A INTRINSIC
low complexity region 476 488 N/A INTRINSIC
low complexity region 515 529 N/A INTRINSIC
low complexity region 739 752 N/A INTRINSIC
low complexity region 843 860 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000141800
Coding Region Coverage
  • 1x: 99.4%
  • 3x: 98.6%
  • 10x: 97.0%
  • 20x: 93.9%
Validation Efficiency
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This protein forms part of the RNA polymerase II (RNAPII) enzyme complex and may recruit RNAPII to chromatin through its interaction with acetylated histones. [provided by RefSeq, Jul 2012]
Allele List at MGI
Other mutations in this stock
Total: 45 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Acot5 T C 12: 84,122,375 (GRCm39) F320L possibly damaging Het
Alox12e T C 11: 70,212,087 (GRCm39) K170R probably damaging Het
Ano2 T C 6: 125,969,849 (GRCm39) S722P probably benign Het
Cep192 A G 18: 67,946,970 (GRCm39) Y215C probably benign Het
Ces2g A G 8: 105,695,044 (GRCm39) N555S probably benign Het
Cfap58 C T 19: 47,950,925 (GRCm39) Q429* probably null Het
Clcnkb A G 4: 141,139,640 (GRCm39) S121P probably damaging Het
Cltb T A 13: 54,746,564 (GRCm39) E67D probably damaging Het
Ddhd1 A T 14: 45,846,447 (GRCm39) L581Q probably damaging Het
Dnajc3 T C 14: 119,190,633 (GRCm39) probably null Het
Fgf14 T A 14: 124,221,234 (GRCm39) N190I probably damaging Het
Galnt17 T G 5: 130,929,460 (GRCm39) Y449S probably damaging Het
Grin3a C T 4: 49,793,033 (GRCm39) probably null Het
Gxylt2 A G 6: 100,764,173 (GRCm39) N286S probably damaging Het
H2-K2 A G 17: 34,216,113 (GRCm39) V120A probably benign Het
Inpp5f T C 7: 128,296,034 (GRCm39) V168A probably damaging Het
Kif1a G T 1: 93,006,491 (GRCm39) H59N probably damaging Het
Krt24 T C 11: 99,175,456 (GRCm39) Q193R possibly damaging Het
Krtap5-4 C A 7: 141,857,351 (GRCm39) S7* probably null Het
Ltn1 A G 16: 87,229,312 (GRCm39) probably null Het
Mcm2 G A 6: 88,869,990 (GRCm39) R60C probably damaging Het
Mep1b A T 18: 21,221,632 (GRCm39) D194V probably damaging Het
Mettl25b A T 3: 87,834,162 (GRCm39) M171K possibly damaging Het
Orc3 C T 4: 34,586,503 (GRCm39) V382M probably damaging Het
Pclo T A 5: 14,728,665 (GRCm39) probably benign Het
Pcolce T C 5: 137,607,356 (GRCm39) H45R probably damaging Het
Prf1 T C 10: 61,138,942 (GRCm39) V300A possibly damaging Het
Prorp T C 12: 55,351,101 (GRCm39) F137L probably damaging Het
Prss53 T C 7: 127,490,037 (GRCm39) I18V probably benign Het
Rnase2b A G 14: 51,400,188 (GRCm39) T90A probably benign Het
Rsf1 CG CGACGGCGGGG 7: 97,229,115 (GRCm39) probably benign Het
Rufy4 T C 1: 74,186,822 (GRCm39) C537R probably damaging Het
Sec16b G A 1: 157,363,062 (GRCm39) V298I probably damaging Het
Smarcd3 C T 5: 24,800,746 (GRCm39) R156Q probably damaging Het
St6galnac2 C T 11: 116,572,731 (GRCm39) A242T probably damaging Het
Syce1l T C 8: 114,369,937 (GRCm39) probably null Het
Tcam1 T C 11: 106,174,940 (GRCm39) C132R probably damaging Het
Trpa1 T C 1: 14,982,605 (GRCm39) I84V probably benign Het
Ttn G A 2: 76,717,342 (GRCm39) R455* probably null Het
Ubl5 T A 9: 20,557,876 (GRCm39) probably benign Het
Ubr2 T A 17: 47,277,141 (GRCm39) K779* probably null Het
Ugt1a10 A G 1: 87,983,669 (GRCm39) I156V probably benign Het
Unc13b A G 4: 43,239,854 (GRCm39) T3513A probably damaging Het
Vmn1r20 C T 6: 57,409,121 (GRCm39) T149I probably benign Het
Zfp804a T A 2: 82,087,201 (GRCm39) D343E probably benign Het
Other mutations in Rpap1
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL01807:Rpap1 APN 2 119,613,189 (GRCm39) missense possibly damaging 0.50
IGL02009:Rpap1 APN 2 119,610,594 (GRCm39) missense possibly damaging 0.51
IGL02068:Rpap1 APN 2 119,613,135 (GRCm39) missense probably benign 0.02
IGL02100:Rpap1 APN 2 119,599,807 (GRCm39) missense probably benign 0.06
IGL02528:Rpap1 APN 2 119,605,431 (GRCm39) splice site probably null
IGL02530:Rpap1 APN 2 119,613,720 (GRCm39) splice site probably benign
IGL02747:Rpap1 APN 2 119,604,609 (GRCm39) missense probably damaging 0.98
IGL03371:Rpap1 APN 2 119,605,538 (GRCm39) splice site probably benign
R0138:Rpap1 UTSW 2 119,595,380 (GRCm39) splice site probably null
R0325:Rpap1 UTSW 2 119,602,321 (GRCm39) missense probably benign
R0616:Rpap1 UTSW 2 119,608,601 (GRCm39) missense probably damaging 1.00
R1081:Rpap1 UTSW 2 119,601,750 (GRCm39) missense probably damaging 1.00
R1657:Rpap1 UTSW 2 119,614,259 (GRCm39) missense possibly damaging 0.53
R1837:Rpap1 UTSW 2 119,600,366 (GRCm39) critical splice donor site probably null
R2308:Rpap1 UTSW 2 119,614,247 (GRCm39) missense probably benign 0.00
R2375:Rpap1 UTSW 2 119,600,888 (GRCm39) missense possibly damaging 0.50
R2507:Rpap1 UTSW 2 119,610,535 (GRCm39) critical splice donor site probably null
R2508:Rpap1 UTSW 2 119,610,535 (GRCm39) critical splice donor site probably null
R4155:Rpap1 UTSW 2 119,604,660 (GRCm39) missense probably damaging 1.00
R4156:Rpap1 UTSW 2 119,604,660 (GRCm39) missense probably damaging 1.00
R4157:Rpap1 UTSW 2 119,604,660 (GRCm39) missense probably damaging 1.00
R4657:Rpap1 UTSW 2 119,605,487 (GRCm39) missense probably benign 0.03
R4837:Rpap1 UTSW 2 119,608,732 (GRCm39) missense probably benign 0.32
R4880:Rpap1 UTSW 2 119,614,346 (GRCm39) missense probably damaging 0.97
R5010:Rpap1 UTSW 2 119,600,522 (GRCm39) missense probably benign
R5111:Rpap1 UTSW 2 119,601,728 (GRCm39) missense probably damaging 1.00
R5650:Rpap1 UTSW 2 119,604,331 (GRCm39) missense probably benign
R6144:Rpap1 UTSW 2 119,603,128 (GRCm39) nonsense probably null
R6353:Rpap1 UTSW 2 119,607,377 (GRCm39) splice site probably null
R6646:Rpap1 UTSW 2 119,610,612 (GRCm39) missense probably benign 0.03
R6731:Rpap1 UTSW 2 119,608,777 (GRCm39) missense probably benign
R6872:Rpap1 UTSW 2 119,605,850 (GRCm39) missense probably damaging 1.00
R6878:Rpap1 UTSW 2 119,608,657 (GRCm39) missense probably damaging 1.00
R7060:Rpap1 UTSW 2 119,604,043 (GRCm39) missense probably damaging 1.00
R7558:Rpap1 UTSW 2 119,601,735 (GRCm39) missense probably benign
R7640:Rpap1 UTSW 2 119,594,891 (GRCm39) missense possibly damaging 0.63
R7862:Rpap1 UTSW 2 119,605,893 (GRCm39) critical splice acceptor site probably null
R8055:Rpap1 UTSW 2 119,595,284 (GRCm39) missense probably benign 0.13
R8934:Rpap1 UTSW 2 119,599,730 (GRCm39) critical splice donor site probably null
R9032:Rpap1 UTSW 2 119,608,776 (GRCm39) missense probably benign 0.00
R9220:Rpap1 UTSW 2 119,604,669 (GRCm39) missense probably damaging 0.99
R9422:Rpap1 UTSW 2 119,613,519 (GRCm39) intron probably benign
R9651:Rpap1 UTSW 2 119,598,484 (GRCm39) missense probably damaging 1.00
R9776:Rpap1 UTSW 2 119,607,278 (GRCm39) missense probably benign 0.00
X0028:Rpap1 UTSW 2 119,601,543 (GRCm39) missense probably benign
Z1177:Rpap1 UTSW 2 119,614,233 (GRCm39) missense probably damaging 1.00
Predicted Primers PCR Primer
(F):5'- GCACCTCTGGTCCCTCAGTATT -3'
(R):5'- TGCATGGAAAAGATAAAGACCACC -3'

Sequencing Primer
(F):5'- CTGGTCCCTCAGTATTTACAAGAAG -3'
(R):5'- ACCAGGGTTCGGTTGTAACC -3'
Posted On 2014-10-30