Rh4DG293800

Possible membrane-associated motif in LPS-induced tumor necrosis factor alpha factor (LITAF), also known as PIG7, and other animal proteins.

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0012424
Physical Location & Seq
Forward (+)
51528424 .. 51530043
1620 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG293800.1

Sequence Viewer

Length: 408 bp
ATGCAAGGATACCCTCCACCACCGCATCAGGCGGAGATGTCGAAGATGCCGCCGCAGCAGCAACCGCCGGTGATGGGAGTCCCCTACTACGTCCGCGAGAATCCCTACCAGGCCGGCATGGTTCCACCCAACGCCATTTACGGCGACCCAAAAGGAGTTCCGCTTCAACAAACCATCTACAGAGACACACCCGCTCCTTTCAACTGCCTTTACTGCGGCGACACCGGACTCACCCAAGTCAGATCAAAGCCGAGTCTGGCATCTGTTGTGGGGTGTTTGATGTGTTGTGGTTGTGGGTTCTGCTTTCTTTTGCGTTCCATGGACTGCCTCTGGCATAAGTACCATTATTGCTCACACTGCCACCAAAAGGTAAATGTGGCTTATGACTTGTCTCTCAAATTTCTATGA

Protein Analysis

135

Amino Acids

15.15

Weight (kDa)

8.32

Isoelectric Point (pI)

65.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-LITAF-like PF10601 62 - 125 1e-11 LITAF-like zinc ribbon domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0012424)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G13190 AT5G13190
fragaria_vesca FvH4_4g23080 FvH4_4g23080
malus_domestica MD13G1126300.v1.1 MD16G1126800.v1.1
prunus_persica Prupe.1G219100_v2.0.a1
pyrus_communis pycom13g10980 pycom16g10760
rosa_chinensis RchiOBHm_Chr4g0429351
rosa_multiflora Rmu_sc0003708.1_g000047 Rmu_sc0003904.1_g000002
rosa_roxburghii Rroxscaffold_5G00370960
rosa_rugosa Rorug04G0235200
rosa_samantha Rh4AG291000 Rh4BG296900 Rh4CG312400 Rh4DG293800
rosa_wichuraiana Rw4G025200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 194
AccII CGCG 1 cut(s) 96
AciI CCGC 9 cut(s) 23, 32, 50, 53, 65, 94, 161, 192, 216
AcsI RAATTY 1 cut(s) 398
AfaI GTAC 1 cut(s) 341
AfiI CCNNNNNNNGG 2 cut(s) 74, 367
AgsI TTSAA 2 cut(s) 167, 202
AjnI CCWGG 1 cut(s) 108
Alw26I GTCTC 2 cut(s) 177, 396
AoxI GGCC 1 cut(s) 111
ApeKI GCWGC 2 cut(s) 55, 58
ApoI RAATTY 1 cut(s) 398
AsuHPI GGTGA 2 cut(s) 82, 223
BbvI GCAGC 2 cut(s) 67, 70
BccI CCATC 2 cut(s) 67, 182
BceAI ACGGC 1 cut(s) 157
BciT130I CCWGG 1 cut(s) 110
BcoDI GTCTC 2 cut(s) 177, 396
BfmI CTRYAG 1 cut(s) 178
BisI GCNGC 5 cut(s) 50, 53, 56, 59, 217
BlsI GCNGC 5 cut(s) 51, 54, 57, 60, 218
Bme1390I CCNGG 1 cut(s) 110
BmiI GGNNCC 1 cut(s) 123
BmrFI CCNGG 1 cut(s) 110
BmsI GCATC 3 cut(s) 34, 36, 269
BsaJI CCNNGG 1 cut(s) 318
BsaWI WCCGGW 1 cut(s) 224
BsaXI ACNNNNNCTCC 2 cut(s) 178, 208
Bsc4I CCNNNNNNNGG 2 cut(s) 74, 367
Bse118I RCCGGY 2 cut(s) 67, 113
BseBI CCWGG 1 cut(s) 110
BseDI CCNNGG 1 cut(s) 318
BseLI CCNNNNNNNGG 2 cut(s) 74, 367
BseXI GCAGC 2 cut(s) 67, 70
Bsh1236I CGCG 1 cut(s) 96
BshFI GGCC 1 cut(s) 113
BsiSI CCGG 3 cut(s) 68, 114, 225
BslFI GGGAC 1 cut(s) 65
BslI CCNNNNNNNGG 2 cut(s) 74, 367
BsmAI GTCTC 2 cut(s) 177, 396
BsmFI GGGAC 1 cut(s) 65
BsnI GGCC 1 cut(s) 113
Bsp143I GATC 1 cut(s) 242
Bsp19I CCATGG 1 cut(s) 318
BspACI CCGC 9 cut(s) 23, 32, 50, 53, 65, 94, 161, 192, 216
BspANI GGCC 1 cut(s) 113
BspFNI CGCG 1 cut(s) 96
BspLI GGNNCC 1 cut(s) 123
BsrBI CCGCTC 1 cut(s) 194
BsrFI RCCGGY 2 cut(s) 67, 113
BssAI RCCGGY 2 cut(s) 67, 113
BssECI CCNNGG 1 cut(s) 318
BssMI GATC 1 cut(s) 242
BssT1I CCWWGG 1 cut(s) 318
Bst2UI CCWGG 1 cut(s) 110
BstC8I GCNNGC 1 cut(s) 115
BstDSI CCRYGG 1 cut(s) 318
BstFNI CGCG 1 cut(s) 96
BstKTI GATC 1 cut(s) 245
BstMAI GTCTC 2 cut(s) 177, 396
BstMBI GATC 1 cut(s) 242
BstMWI GCNNNNNNNGC 5 cut(s) 55, 58, 64, 213, 357
BstNI CCWGG 1 cut(s) 110
BstSCI CCNGG 1 cut(s) 108
BstSFI CTRYAG 1 cut(s) 178
BstUI CGCG 1 cut(s) 96
BstV1I GCAGC 2 cut(s) 67, 70
BsuRI GGCC 1 cut(s) 113
BtgI CCRYGG 1 cut(s) 318
BtsI GCAGTG 1 cut(s) 355
BtsIMutI CAGTG 1 cut(s) 355
Cac8I GCNNGC 1 cut(s) 115
Cfr10I RCCGGY 2 cut(s) 67, 113
Csp6I GTAC 1 cut(s) 340
CviAII CATG 2 cut(s) 118, 319
CviJI RGCY 3 cut(s) 113, 250, 380
CviKI_1 RGCY 3 cut(s) 113, 250, 380
CviQI GTAC 1 cut(s) 340
DpnI GATC 1 cut(s) 244
DpnII GATC 1 cut(s) 242
EciI GGCGGA 1 cut(s) 47
Eco130I CCWWGG 1 cut(s) 318
EcoRII CCWGG 1 cut(s) 108
EcoT14I CCWWGG 1 cut(s) 318
ErhI CCWWGG 1 cut(s) 318
FaeI CATG 2 cut(s) 121, 322
FaiI YATR 5 cut(s) 119, 320, 336, 384, 406
FaqI GGGAC 1 cut(s) 65
FatI CATG 2 cut(s) 117, 318
FauI CCCGC 1 cut(s) 199
Fnu4HI GCNGC 5 cut(s) 50, 53, 56, 59, 217
Fsp4HI GCNGC 5 cut(s) 50, 53, 56, 59, 217
GluI GCNGC 5 cut(s) 50, 53, 56, 59, 217
HaeIII GGCC 1 cut(s) 113
HapII CCGG 3 cut(s) 68, 114, 225
Hin1II CATG 2 cut(s) 121, 322
HinfI GANTC 4 cut(s) 78, 100, 228, 253
HpaII CCGG 3 cut(s) 68, 114, 225
HphI GGTGA 2 cut(s) 82, 223
Hpy188I TCNGA 1 cut(s) 242
HpyCH4IV ACGT 1 cut(s) 90
HpyCH4V TGCA 1 cut(s) 4
HpyF10VI GCNNNNNNNGC 5 cut(s) 55, 58, 64, 213, 357
HpySE526I ACGT 1 cut(s) 90
Hsp92II CATG 2 cut(s) 121, 322
KroI GCCGGC 1 cut(s) 113
KroNI GCCGGC 1 cut(s) 115
Kzo9I GATC 1 cut(s) 242
LmnI GCTCC 1 cut(s) 199
LpnPI CCDG 8 cut(s) 14, 81, 95, 122, 127, 238, 242, 316
Lsp1109I GCAGC 2 cut(s) 67, 70
LweI GCATC 3 cut(s) 34, 36, 269
MaeII ACGT 1 cut(s) 90
MalI GATC 1 cut(s) 244
MbiI CCGCTC 1 cut(s) 194
MboI GATC 1 cut(s) 242
MboII GAAGA 1 cut(s) 55
MluCI AATT 1 cut(s) 398
MlyI GAGTC 3 cut(s) 87, 222, 262
MnlI CCTC 2 cut(s) 24, 338
MroNI GCCGGC 1 cut(s) 113
MspI CCGG 3 cut(s) 68, 114, 225
MspR9I CCNGG 1 cut(s) 110
MvaI CCWGG 1 cut(s) 110
MvnI CGCG 1 cut(s) 96
MwoI GCNNNNNNNGC 5 cut(s) 55, 58, 64, 213, 357
NaeI GCCGGC 1 cut(s) 115
NcoI CCATGG 1 cut(s) 318
NdeII GATC 1 cut(s) 242
NgoMIV GCCGGC 1 cut(s) 113
NlaIII CATG 2 cut(s) 121, 322
NlaIV GGNNCC 1 cut(s) 123
NmeAIII GCCGAG 1 cut(s) 276
PdiI GCCGGC 1 cut(s) 115
PfeI GAWTC 1 cut(s) 100
PkrI GCNGC 5 cut(s) 51, 54, 57, 60, 218
PleI GAGTC 3 cut(s) 86, 222, 261
PpsI GAGTC 3 cut(s) 86, 222, 261
Psp6I CCWGG 1 cut(s) 108
PspGI CCWGG 1 cut(s) 108
PspN4I GGNNCC 1 cut(s) 123
RsaI GTAC 1 cut(s) 341
RsaNI GTAC 1 cut(s) 340
SatI GCNGC 5 cut(s) 50, 53, 56, 59, 217
Sau3AI GATC 1 cut(s) 242
SchI GAGTC 3 cut(s) 87, 222, 262
ScrFI CCNGG 1 cut(s) 110
SetI ASST 2 cut(s) 93, 372
SfaNI GCATC 3 cut(s) 34, 36, 269
SfcI CTRYAG 1 cut(s) 178
SgrAI CRCCGGYG 1 cut(s) 67
Sse9I AATT 1 cut(s) 398
SsiI CCGC 9 cut(s) 23, 32, 50, 53, 65, 94, 161, 192, 216
StyD4I CCNGG 1 cut(s) 108
StyI CCWWGG 1 cut(s) 318
TaiI ACGT 1 cut(s) 93
TaqI TCGA 1 cut(s) 41
TasI AATT 1 cut(s) 398
TauI GCSGC 3 cut(s) 52, 55, 219
TfiI GAWTC 1 cut(s) 100
TscAI CASTG 1 cut(s) 362
TseI GCWGC 2 cut(s) 55, 58
TspRI CASTG 1 cut(s) 362
XapI RAATTY 1 cut(s) 398
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.