Incidental Mutation 'R4771:Gtf2a1l'
ID 367560
Institutional Source Beutler Lab
Gene Symbol Gtf2a1l
Ensembl Gene ENSMUSG00000024154
Gene Name general transcription factor IIA, 1-like
Synonyms Gtf2a1lf, 1700011N16Rik, Alf
Accession Numbers
Essential gene? Possibly essential (E-score: 0.650) question?
Stock # R4771 (G1)
Quality Score 221
Status Not validated
Chromosome 17
Chromosomal Location 88976088-89022580 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) C to A at 88997448 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Proline to Glutamine at position 93 (P93Q)
Ref Sequence ENSEMBL: ENSMUSP00000024970 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000024970] [ENSMUST00000161481]
AlphaFold Q8R4I4
Predicted Effect probably benign
Transcript: ENSMUST00000024970
AA Change: P93Q

PolyPhen 2 Score 0.229 (Sensitivity: 0.91; Specificity: 0.88)
SMART Domains Protein: ENSMUSP00000024970
Gene: ENSMUSG00000024154
AA Change: P93Q

DomainStartEndE-ValueType
TFIIA 9 468 6.87e-202 SMART
Predicted Effect probably benign
Transcript: ENSMUST00000161481
SMART Domains Protein: ENSMUSP00000124286
Gene: ENSMUSG00000024154

DomainStartEndE-ValueType
Pfam:TFIIA 9 76 3.2e-29 PFAM
Pfam:TFIIA 70 243 3e-13 PFAM
Coding Region Coverage
  • 1x: 99.2%
  • 3x: 98.6%
  • 10x: 97.1%
  • 20x: 95.0%
Validation Efficiency
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The assembly and stability of the RNA polymerase II transcription pre-initiation complex on a eukaryotic core promoter involve the effects of transcription factor IIA (TFIIA) on the interaction between TATA-binding protein (TBP) and DNA. This gene encodes a germ cell-specific counterpart of the large (alpha/beta) subunit of general transcription factor TFIIA that is able to stabilize the binding of TBP to DNA and may be uniquely important to testis biology. Alternative splicing for this locus has been observed and two variants, encoding distinct isoforms, have been identified. Co-transcription of this gene and the neighboring upstream gene generates a rare transcript (SALF), which encodes a fusion protein comprised of sequence sharing identity with each individual gene product. [provided by RefSeq, Mar 2014]
Allele List at MGI
Other mutations in this stock
Total: 111 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
2310022B05Rik T C 8: 125,366,300 (GRCm39) T148A probably benign Het
Abcc4 G T 14: 118,721,796 (GRCm39) N1234K probably benign Het
Adamts20 C T 15: 94,249,516 (GRCm39) probably null Het
Aqp9 C T 9: 71,030,152 (GRCm39) G212S probably damaging Het
Asb15 A T 6: 24,570,621 (GRCm39) N533I probably damaging Het
Brwd1 A G 16: 95,804,518 (GRCm39) V1884A probably benign Het
Ccdc106 G A 7: 5,060,521 (GRCm39) probably null Het
Cfap46 A T 7: 139,210,524 (GRCm39) L1774Q probably null Het
Cfap95 A G 19: 23,536,337 (GRCm39) L190P probably damaging Het
Cibar1 T A 4: 12,155,689 (GRCm39) Q311L probably benign Het
Clec2h G A 6: 128,651,118 (GRCm39) E133K probably damaging Het
Cntn1 T A 15: 92,202,972 (GRCm39) F751L possibly damaging Het
Col20a1 A T 2: 180,630,917 (GRCm39) M62L probably benign Het
Col7a1 T C 9: 108,800,993 (GRCm39) V1899A probably damaging Het
Cpa5 T A 6: 30,612,684 (GRCm39) L28* probably null Het
Crb1 T A 1: 139,255,942 (GRCm39) E264D probably damaging Het
Creb3l2 A T 6: 37,311,512 (GRCm39) S426T probably benign Het
Cspg5 T A 9: 110,080,195 (GRCm39) N373K probably damaging Het
Ctso T C 3: 81,840,047 (GRCm39) S26P probably benign Het
Depdc1b A C 13: 108,519,434 (GRCm39) D348A probably benign Het
Diaph1 A T 18: 37,986,604 (GRCm39) M1127K probably damaging Het
Dlgap1 A T 17: 70,900,375 (GRCm39) K397* probably null Het
Dock3 T A 9: 106,829,557 (GRCm39) H1119L possibly damaging Het
Dok4 G T 8: 95,591,795 (GRCm39) probably null Het
Dram2 A G 3: 106,480,361 (GRCm39) T225A probably damaging Het
Dst G A 1: 34,288,565 (GRCm39) R5603H probably damaging Het
Ehbp1l1 A G 19: 5,775,996 (GRCm39) F18S probably damaging Het
Epha5 A G 5: 84,298,278 (GRCm39) V427A probably damaging Het
Exoc4 A T 6: 33,418,884 (GRCm39) probably null Het
Exph5 C T 9: 53,284,965 (GRCm39) T682I possibly damaging Het
Fnbp1l A T 3: 122,351,752 (GRCm39) S264T possibly damaging Het
Ggnbp2 A T 11: 84,725,314 (GRCm39) D580E probably benign Het
Gm10277 G A 11: 77,676,534 (GRCm39) probably benign Het
Golm2 T A 2: 121,756,126 (GRCm39) V352E probably damaging Het
Hydin A T 8: 111,259,515 (GRCm39) I2496F probably benign Het
Ighv7-2 A C 12: 113,876,087 (GRCm39) I6S probably benign Het
Irs1 A G 1: 82,265,696 (GRCm39) V840A probably benign Het
Itgal A G 7: 126,927,405 (GRCm39) E965G probably damaging Het
Izumo1 T G 7: 45,272,233 (GRCm39) F5V probably benign Het
Izumo1 T A 7: 45,272,234 (GRCm39) F5Y probably damaging Het
Kif13a A G 13: 46,978,687 (GRCm39) S175P probably damaging Het
Klf14 A G 6: 30,934,960 (GRCm39) F225L probably damaging Het
Kpna1 T C 16: 35,853,773 (GRCm39) Y468H probably damaging Het
Krt5 T A 15: 101,617,494 (GRCm39) Q413L probably damaging Het
Lbr T C 1: 181,665,986 (GRCm39) Y41C probably damaging Het
Lmcd1 A T 6: 112,292,834 (GRCm39) N229Y probably damaging Het
Marchf3 T A 18: 56,916,170 (GRCm39) H175L probably benign Het
Mcmbp A G 7: 128,300,124 (GRCm39) probably null Het
Med27 T A 2: 29,303,515 (GRCm39) L16Q probably damaging Het
Mex3b A T 7: 82,518,273 (GRCm39) Q196L possibly damaging Het
Mga T C 2: 119,794,775 (GRCm39) S2820P probably damaging Het
Mroh2a C T 1: 88,179,087 (GRCm39) L1104F probably damaging Het
Mta3 A G 17: 84,063,103 (GRCm39) E166G probably damaging Het
Mthfd2l A G 5: 91,096,727 (GRCm39) E116G possibly damaging Het
Musk A G 4: 58,301,706 (GRCm39) I155V probably benign Het
Myh7b G A 2: 155,468,314 (GRCm39) W834* probably null Het
Myo18b T A 5: 112,840,093 (GRCm39) R2567* probably null Het
Nars2 A T 7: 96,684,452 (GRCm39) E325V probably damaging Het
Nploc4 A G 11: 120,312,260 (GRCm39) V106A possibly damaging Het
Nudcd1 A T 15: 44,268,878 (GRCm39) S167R probably damaging Het
Nup133 T A 8: 124,656,137 (GRCm39) D448V probably damaging Het
Or5al1 G T 2: 85,990,417 (GRCm39) T99N probably benign Het
Or5p70 A T 7: 107,995,229 (GRCm39) K301* probably null Het
Pax6 C A 2: 105,526,847 (GRCm39) P251Q probably benign Het
Pcdh8 C T 14: 80,005,710 (GRCm39) A893T possibly damaging Het
Per3 A T 4: 151,093,716 (GRCm39) V1033E probably damaging Het
Polr1e T C 4: 45,019,282 (GRCm39) S44P probably damaging Het
Pou4f2 T A 8: 79,161,865 (GRCm39) H246L possibly damaging Het
Psmd2 G A 16: 20,481,429 (GRCm39) R828Q probably damaging Het
Ptprq A G 10: 107,524,288 (GRCm39) S482P probably benign Het
Rbm14 G T 19: 4,852,671 (GRCm39) probably benign Het
Reln T C 5: 22,254,698 (GRCm39) D557G probably damaging Het
Rhobtb2 A G 14: 70,034,499 (GRCm39) I242T probably benign Het
Runx1 C A 16: 92,492,629 (GRCm39) V5L possibly damaging Het
Shld2 G A 14: 33,990,663 (GRCm39) T81M probably damaging Het
Slc13a1 A T 6: 24,100,339 (GRCm39) Y381* probably null Het
Smyd3 A T 1: 178,921,961 (GRCm39) C180S probably damaging Het
Sntg2 T A 12: 30,326,658 (GRCm39) probably null Het
Snx19 G A 9: 30,344,934 (GRCm39) V678I probably damaging Het
Spag5 G A 11: 78,195,592 (GRCm39) A300T probably damaging Het
Spdl1 T A 11: 34,704,154 (GRCm39) R560W probably damaging Het
Spen T C 4: 141,199,907 (GRCm39) T2884A probably benign Het
Spg11 G A 2: 121,895,963 (GRCm39) Q1752* probably null Het
Srrm4 C A 5: 116,613,234 (GRCm39) probably null Het
Ssc4d A G 5: 135,999,074 (GRCm39) L43P probably damaging Het
Sspo A G 6: 48,437,813 (GRCm39) D1324G probably damaging Het
Tkt T G 14: 30,288,982 (GRCm39) I238S probably damaging Het
Tmem184b A T 15: 79,261,377 (GRCm39) N76K probably benign Het
Trpm6 A G 19: 18,790,857 (GRCm39) M631V probably damaging Het
Ttll6 A C 11: 96,024,655 (GRCm39) E15A possibly damaging Het
Ttn T C 2: 76,569,296 (GRCm39) D27199G probably damaging Het
Ubn2 A T 6: 38,464,088 (GRCm39) probably null Het
Ubr5 A C 15: 38,018,541 (GRCm39) I866M possibly damaging Het
Urb1 T C 16: 90,550,406 (GRCm39) T2149A probably benign Het
Ush2a G T 1: 188,529,966 (GRCm39) V3252L possibly damaging Het
Usp24 A G 4: 106,219,377 (GRCm39) probably null Het
Vill T A 9: 118,897,502 (GRCm39) M259K probably damaging Het
Vldlr T C 19: 27,217,290 (GRCm39) I411T probably damaging Het
Vmn2r120 A T 17: 57,831,887 (GRCm39) W301R probably damaging Het
Vps13b G A 15: 35,910,946 (GRCm39) S3570N probably damaging Het
Vps13c T C 9: 67,836,821 (GRCm39) V1773A probably benign Het
Vtn A G 11: 78,392,400 (GRCm39) D326G probably benign Het
Wdr93 A T 7: 79,426,511 (GRCm39) H592L probably damaging Het
Zdhhc19 A G 16: 32,317,953 (GRCm39) D94G probably damaging Het
Zfand4 A T 6: 116,291,311 (GRCm39) E188V probably damaging Het
Zfp523 C A 17: 28,420,312 (GRCm39) probably null Het
Zfp536 T C 7: 37,268,309 (GRCm39) D369G probably damaging Het
Zfp608 T A 18: 55,121,372 (GRCm39) T72S probably benign Het
Zfp804a T A 2: 82,088,286 (GRCm39) V705E probably benign Het
Zfp974 T C 7: 27,625,733 (GRCm39) T46A probably damaging Het
Zkscan4 C T 13: 21,663,416 (GRCm39) Q52* probably null Het
Other mutations in Gtf2a1l
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00565:Gtf2a1l APN 17 89,001,723 (GRCm39) missense probably damaging 1.00
IGL00928:Gtf2a1l APN 17 89,001,890 (GRCm39) missense probably benign 0.09
IGL00974:Gtf2a1l APN 17 89,022,377 (GRCm39) missense probably damaging 1.00
IGL01024:Gtf2a1l APN 17 88,978,719 (GRCm39) missense probably damaging 1.00
IGL02429:Gtf2a1l APN 17 88,976,141 (GRCm39) start codon destroyed probably null 0.61
IGL02658:Gtf2a1l APN 17 88,976,146 (GRCm39) missense probably benign 0.01
IGL03377:Gtf2a1l APN 17 89,019,021 (GRCm39) missense probably benign 0.03
R0848:Gtf2a1l UTSW 17 89,001,657 (GRCm39) missense probably damaging 0.99
R0899:Gtf2a1l UTSW 17 88,976,152 (GRCm39) missense
R1435:Gtf2a1l UTSW 17 89,001,743 (GRCm39) missense probably damaging 1.00
R1716:Gtf2a1l UTSW 17 89,002,008 (GRCm39) missense probably benign 0.06
R1861:Gtf2a1l UTSW 17 89,022,382 (GRCm39) missense probably damaging 1.00
R2301:Gtf2a1l UTSW 17 89,018,900 (GRCm39) missense probably benign
R2906:Gtf2a1l UTSW 17 89,002,083 (GRCm39) missense possibly damaging 0.92
R4281:Gtf2a1l UTSW 17 89,019,065 (GRCm39) missense possibly damaging 0.95
R4289:Gtf2a1l UTSW 17 89,001,884 (GRCm39) missense probably damaging 0.98
R4904:Gtf2a1l UTSW 17 88,997,471 (GRCm39) critical splice donor site probably null
R4941:Gtf2a1l UTSW 17 89,022,350 (GRCm39) missense probably damaging 1.00
R5106:Gtf2a1l UTSW 17 89,002,073 (GRCm39) missense possibly damaging 0.95
R6003:Gtf2a1l UTSW 17 89,001,531 (GRCm39) missense probably damaging 1.00
R6035:Gtf2a1l UTSW 17 89,018,962 (GRCm39) missense probably benign 0.00
R6035:Gtf2a1l UTSW 17 89,018,962 (GRCm39) missense probably benign 0.00
R6128:Gtf2a1l UTSW 17 89,002,086 (GRCm39) missense probably null 0.94
R6246:Gtf2a1l UTSW 17 88,978,975 (GRCm39) missense probably benign 0.09
R6481:Gtf2a1l UTSW 17 89,019,053 (GRCm39) missense probably benign 0.09
R7344:Gtf2a1l UTSW 17 89,001,531 (GRCm39) missense probably damaging 1.00
R7462:Gtf2a1l UTSW 17 89,001,566 (GRCm39) missense possibly damaging 0.77
R8712:Gtf2a1l UTSW 17 89,022,351 (GRCm39) missense probably damaging 1.00
R8849:Gtf2a1l UTSW 17 89,001,566 (GRCm39) missense possibly damaging 0.77
R9178:Gtf2a1l UTSW 17 88,976,152 (GRCm39) missense
R9407:Gtf2a1l UTSW 17 89,001,531 (GRCm39) missense probably damaging 1.00
R9569:Gtf2a1l UTSW 17 89,001,948 (GRCm39) missense probably benign
R9760:Gtf2a1l UTSW 17 89,019,020 (GRCm39) missense probably benign 0.03
Predicted Primers PCR Primer
(F):5'- TCAGATGGAGCCAGTAAGTTTAG -3'
(R):5'- ATAGCTGCACTGAGGCTGAC -3'

Sequencing Primer
(F):5'- GGAGCCAGTAAGTTTAGAATTTAGC -3'
(R):5'- TGCACTGAGGCTGACAACCG -3'
Posted On 2015-12-29